genome.fa.s7981.2.7.7.80.10.50.1000.3.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: VEPZ01007981.1 Hibiscus syriacus cultivar Beakdansim tig00110422_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1405786

Tables:   1   2   3   4   5   6   7   8   

This is table  3  of  8  ( 859 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)
404898--404936	18	2.2	18	95	4	71	64	2	0	33	1.08
404975--405024	10	5.0	10	82	0	55	44	0	30	26	1.55
410055--410095	14	2.9	14	85	0	55	12	12	19	56	1.67
416373--416414	17	2.5	17	88	7	59	33	9	21	35	1.86
429317--429469	80	1.9	80	95	0	279	28	10	5	55	1.57
429615--429663	24	2.0	25	88	8	73	59	0	0	40	0.98
429639--429669	15	2.1	15	100	0	62	51	0	0	48	1.00
434206--434783	289	2.0	289	99	0	1138	31	17	24	27	1.97
440247--440289	20	2.2	20	86	0	59	30	11	20	37	1.89
441968--442012	21	2.1	21	88	8	65	53	0	0	46	1.00
442023--442047	2	12.5	2	100	0	50	52	0	0	48	1.00
444283--444323	22	1.9	22	90	5	66	68	4	0	26	1.10
451145--451211	2	34.0	2	93	3	118	52	0	0	47	1.00
452882--453341	243	1.9	242	85	3	638	32	16	16	34	1.91
453615--453659	21	2.1	21	87	0	63	51	2	11	35	1.50
463590--463637	24	2.0	25	84	12	64	62	0	8	29	1.24
470356--470402	19	2.5	19	82	0	58	74	2	2	21	1.03
470429--470528	42	2.6	37	76	20	98	64	2	7	27	1.30
470429--470528	41	2.6	37	77	21	100	64	2	7	27	1.30
471637--471681	2	24.0	2	86	13	69	53	0	0	46	1.00
471639--471681	17	2.6	17	96	3	79	53	0	0	46	1.00
472158--472611	85	5.4	85	81	6	469	26	18	21	33	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
472272--472608	169	2.0	170	86	4	475	24	19	21	34	1.96
472850--472890	21	2.0	21	100	0	82	24	24	24	26	2.00
473636--473702	30	2.2	31	83	2	82	37	25	17	19	1.94
473664--473849	32	5.9	32	80	8	154	31	20	17	30	1.96
473662--473849	64	3.0	64	77	11	201	31	21	17	29	1.96
475497--476134	85	7.5	85	81	1	677	24	17	20	37	1.94
475497--476134	171	3.7	170	81	2	708	24	17	20	37	1.94
475509--476134	256	2.4	254	82	3	729	25	17	20	36	1.94
477282--477475	95	2.0	95	90	3	302	29	15	18	36	1.92
481760--481789	15	1.9	16	93	6	53	53	3	23	20	1.60
482019--482054	18	2.0	18	100	0	72	16	22	33	27	1.95
482034--482099	23	2.9	23	95	0	114	19	22	24	33	1.97
485969--486123	64	2.5	61	81	9	154	32	21	20	25	1.98
488998--489044	14	3.3	14	81	18	53	78	2	6	12	1.02
488991--489041	20	2.6	19	90	9	84	78	1	5	13	1.02
489084--489175	40	2.3	43	77	12	104	66	2	5	26	1.25
490218--490376	62	2.5	62	82	4	167	33	16	21	28	1.95
490350--490396	19	2.5	19	100	0	94	27	23	29	19	1.98
490383--490438	20	2.5	22	77	16	62	30	21	23	25	1.99
491051--491083	17	2.1	17	88	11	52	30	30	3	36	1.73
492458--492502	3	14.7	3	81	4	54	35	4	2	57	1.31
492454--492496	22	2.0	22	95	0	77	34	6	4	53	1.49
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
492513--492541	2	14.5	2	100	0	58	51	0	0	48	1.00
499777--499834	31	1.9	29	82	6	71	36	5	1	56	1.32
500455--500479	13	1.9	13	100	0	50	32	16	12	40	1.84
523506--523621	21	5.6	21	69	10	60	32	27	18	21	1.96
523609--523800	20	9.6	20	90	2	287	32	28	19	19	1.96
524180--524250	33	2.2	33	92	0	115	12	23	15	47	1.80
524330--524436	21	5.6	20	73	17	102	45	18	22	13	1.84
524391--524447	14	3.7	14	75	20	60	43	22	24	8	1.81
524383--524463	33	2.5	33	95	0	144	46	22	22	8	1.78
524489--524553	21	3.1	21	82	4	96	10	26	15	47	1.78
524488--524551	20	3.2	20	82	4	92	12	25	15	46	1.81
526235--526550	93	3.4	93	98	0	605	22	13	18	44	1.85
526666--526722	14	3.7	14	72	20	51	43	24	22	8	1.81
526680--526771	19	5.4	18	72	24	65	46	28	17	7	1.75
526648--526771	33	3.7	33	91	1	185	45	27	17	8	1.78
526697--526755	14	3.9	14	76	20	64	47	28	16	6	1.72
526767--526939	19	9.6	19	76	12	150	10	19	23	45	1.82
526789--526845	14	3.7	14	75	20	51	10	22	22	43	1.84
526767--526939	33	4.8	38	80	8	159	10	19	23	45	1.82
528851--528886	14	2.6	14	95	0	63	33	0	22	44	1.53
528993--529091	20	5.4	19	84	12	136	45	17	23	14	1.84
528993--529109	54	2.2	53	96	3	218	43	17	24	13	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
529100--529256	19	8.7	19	80	16	190	15	21	17	45	1.85
529106--529270	53	3.1	52	82	14	205	13	21	18	46	1.83
529100--529256	72	2.2	72	93	2	262	15	21	17	45	1.85
529106--529289	53	3.5	52	78	8	174	14	20	19	46	1.84
531548--531572	12	2.1	12	100	0	50	0	28	0	72	0.86
531747--531793	24	2.0	24	87	8	69	38	21	14	25	1.92
532486--532676	20	9.6	20	82	4	224	20	17	25	35	1.95
532663--532714	20	2.6	20	81	6	61	11	17	26	44	1.83
534942--534994	23	2.3	22	83	6	61	50	0	1	47	1.12
545457--545491	18	1.9	18	88	11	54	42	5	5	45	1.51
556330--556446	55	2.1	55	95	0	207	23	20	29	26	1.99
559118--559171	17	3.2	17	72	0	54	31	0	3	64	1.11
560702--560749	21	2.3	21	88	0	69	25	37	12	25	1.91
560753--560825	21	3.5	21	88	7	112	17	34	27	20	1.95
569438--569472	3	11.7	3	100	0	70	0	34	0	65	0.93
569907--569967	4	16.0	4	85	10	83	26	1	22	49	1.59
570618--570710	26	3.7	26	81	13	122	20	37	0	41	1.52
570626--570708	23	3.5	23	81	15	105	21	38	0	39	1.54
571543--571599	23	2.5	23	75	11	62	36	0	42	21	1.53
572796--572944	42	3.5	42	92	0	226	38	21	3	36	1.70
576086--576140	3	17.7	3	78	14	58	32	0	1	65	1.03
576085--576125	10	4.2	10	87	6	57	34	0	0	65	0.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
576086--576132	19	2.8	16	79	17	58	34	0	0	65	0.93
576090--576131	19	2.2	19	91	0	66	35	0	0	64	0.94
576088--576147	9	6.4	10	84	11	58	35	0	1	63	1.05
577452--577527	38	2.0	38	97	0	143	25	9	7	57	1.56
577649--577821	30	5.9	30	75	13	128	19	12	11	57	1.65
577668--577916	60	4.2	59	71	9	159	18	13	12	55	1.69
577747--577840	30	3.1	29	79	13	84	19	11	10	58	1.62
577654--577880	120	1.9	118	81	7	271	18	13	11	56	1.66
583332--584532	4	301.8	4	98	0	2351	49	25	0	24	1.51
584871--585171	103	3.0	101	83	9	366	31	16	10	40	1.83
586775--586808	13	2.6	13	90	0	50	26	8	29	35	1.87
587164--587205	12	3.4	12	81	12	50	30	2	14	52	1.54
587879--587935	27	2.1	27	80	6	62	33	15	14	36	1.88
587950--588027	31	2.5	31	82	10	81	33	19	12	34	1.90
587969--588027	32	1.9	32	86	6	86	32	20	11	35	1.89
588064--588129	28	2.4	28	92	5	107	24	10	13	51	1.72
588082--588145	28	2.3	28	83	0	83	28	17	15	39	1.90
588153--588400	134	1.9	134	80	8	299	29	32	15	23	1.95
590094--590176	31	2.7	31	88	5	116	16	12	14	56	1.67
598678--598748	12	5.8	12	71	22	51	43	1	2	52	1.24
598678--598748	17	4.2	16	89	7	97	43	1	2	52	1.24
598913--599017	19	5.2	19	79	13	102	34	3	28	33	1.75
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
599323--599363	5	7.6	5	97	2	55	0	19	53	26	1.45
599326--599367	6	7.5	6	97	2	63	0	16	54	28	1.42
599571--599632	5	12.0	5	73	13	54	40	0	3	56	1.15
599560--599598	19	2.1	19	85	0	51	30	5	2	61	1.31
599603--599636	11	3.2	10	91	4	50	38	0	2	58	1.13
601619--601672	26	2.1	26	92	0	90	18	18	18	44	1.87
606478--606544	21	2.9	23	76	19	68	28	7	0	64	1.21
612239--612277	19	2.1	19	90	0	60	43	15	15	25	1.86
615117--615236	41	2.8	43	80	13	138	40	6	21	31	1.79
615121--615236	47	2.7	41	82	11	133	40	6	21	31	1.80

Tables:   1   2   3   4   5   6   7   8