genome.fa.s520.2.7.7.80.10.50.1000.3.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: VEPZ01000520.1 Hibiscus syriacus cultivar Beakdansim tig00000991_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1956684

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

This is table  3  of  11  ( 1212 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)
372995--373037	13	3.3	13	83	0	59	76	2	2	18	1.00
373067--373234	37	4.5	37	88	5	241	46	10	1	41	1.48
374491--374520	15	2.0	15	100	0	60	40	20	33	6	1.78
376559--376633	20	3.7	20	75	3	69	24	20	1	54	1.52
394502--394541	18	2.2	19	86	4	55	35	5	0	60	1.19
399287--399331	3	15.3	3	95	4	83	35	0	0	64	0.94
400730--400773	16	2.6	17	82	10	63	54	0	0	45	0.99
403719--403758	7	5.9	7	86	13	57	15	17	12	55	1.70
408925--409093	55	3.1	55	85	0	223	38	13	21	27	1.90
409458--409558	22	4.6	22	87	2	141	32	16	12	37	1.87
409458--409558	44	2.3	44	91	3	159	32	16	12	37	1.87
410217--410901	116	5.9	116	94	0	1163	30	20	21	27	1.98
410571--410629	21	2.8	21	72	15	59	35	25	22	16	1.95
410856--411027	77	2.2	77	91	0	272	33	18	19	29	1.95
411282--411332	3	17.3	3	91	4	86	37	0	0	62	0.95
412690--412748	22	2.7	22	84	5	75	52	0	0	47	1.00
412736--412965	126	1.8	127	86	6	342	37	5	7	49	1.54
414223--414282	27	2.2	27	85	5	77	43	6	35	15	1.72
415891--415925	15	2.4	15	95	4	63	42	11	22	22	1.85
419764--419809	17	2.6	17	86	10	58	69	4	26	0	1.07
430297--430353	3	19.3	3	79	13	57	63	0	0	36	0.95
430511--430969	76	6.0	76	97	0	855	34	23	19	22	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
430910--431420	188	2.7	187	96	1	936	37	15	15	31	1.88
431792--431846	22	2.5	22	93	0	101	40	14	10	34	1.81
432213--432367	54	3.0	53	82	6	192	22	21	16	39	1.92
434447--434783	113	3.0	113	92	0	548	31	18	15	33	1.93
438852--438937	36	2.4	35	75	9	84	55	8	17	18	1.65
439978--440429	231	2.0	231	97	0	859	19	22	18	39	1.92
443167--443227	3	19.3	3	77	15	61	62	0	0	37	0.96
443174--443226	10	5.1	11	76	19	60	64	0	0	35	0.94
448149--448183	2	17.5	2	100	0	70	48	0	0	51	1.00
454623--454650	2	14.0	2	100	0	56	50	0	0	50	1.00
468145--469103	476	2.0	476	99	0	1902	42	16	16	24	1.88
470154--470246	21	4.5	21	78	4	100	39	18	24	17	1.91
470154--470246	41	2.3	41	100	0	186	39	18	24	17	1.91
470173--470307	41	3.3	41	82	6	132	37	21	21	19	1.94
470235--470349	20	5.7	20	82	6	115	31	26	18	24	1.97
470232--470369	41	3.4	41	79	6	154	34	24	17	23	1.96
472194--472324	66	2.0	66	95	3	237	44	18	20	16	1.87
472191--472317	33	3.8	33	85	6	186	44	18	20	15	1.86
472326--472406	33	2.5	33	95	0	144	12	23	18	45	1.83
472346--472398	19	3.1	19	64	25	53	13	24	16	45	1.83
472511--472547	14	2.6	14	91	0	65	45	24	0	29	1.53
473898--473964	21	3.2	21	68	4	55	19	20	35	23	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
473898--474020	42	2.9	41	79	7	113	22	18	36	21	1.95
474236--474422	91	2.0	90	88	6	277	48	18	11	21	1.80
474553--474707	63	2.5	63	81	2	141	27	35	17	20	1.94
474589--474719	63	2.1	63	97	0	244	24	36	17	21	1.94
476172--476316	19	8.1	19	73	16	112	46	18	23	11	1.82
476196--476261	33	2.0	33	90	0	105	42	21	24	12	1.86
476184--476316	52	2.5	52	87	1	194	45	20	24	10	1.82
476869--476941	20	3.7	20	96	0	128	27	20	28	23	1.99
476950--477003	20	2.7	20	97	0	99	25	18	24	31	1.97
476890--477006	61	1.9	61	85	0	162	23	17	24	33	1.97
476870--477002	40	3.3	40	80	6	142	25	18	26	29	1.98
477458--477517	30	2.0	30	96	0	111	30	5	20	45	1.72
477698--477764	20	3.3	20	85	4	89	19	28	22	29	1.98
478998--479054	17	3.2	18	72	7	53	75	1	12	10	1.12
479119--479205	36	2.4	36	76	7	95	70	4	2	22	1.18
481211--481592	151	2.5	151	83	3	464	29	20	10	39	1.86
482421--482494	36	2.1	36	97	0	139	41	9	24	24	1.84
487246--487294	12	4.1	12	81	5	55	51	0	0	48	1.00
487228--487285	23	2.4	23	82	5	71	50	1	0	48	1.11
499007--499051	23	1.9	24	90	4	74	31	22	26	20	1.98
500741--500787	24	2.0	24	86	0	67	44	0	2	53	1.12
501558--502226	260	2.5	265	80	10	718	47	6	12	33	1.68
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
502313--503228	4	231.8	4	90	6	1397	48	26	0	24	1.57
503858--503909	25	2.0	26	85	3	70	21	1	9	67	1.29
508111--508144	15	2.3	15	100	0	68	44	20	5	29	1.75
508674--509326	175	3.7	178	86	6	873	42	14	15	27	1.86
512117--513179	198	5.4	199	86	6	1355	37	15	15	31	1.89
514611--515323	199	3.6	199	87	3	1015	40	13	14	31	1.84
515470--515604	20	6.7	20	88	3	164	31	27	19	22	1.98
515787--515830	22	2.0	22	95	0	79	20	45	13	20	1.85
516099--516136	20	1.9	20	94	0	67	10	15	21	52	1.72
517429--517476	18	2.7	18	93	0	87	27	45	12	14	1.81
518016--518061	20	2.3	20	84	0	56	36	23	21	17	1.94
518027--518071	20	2.3	20	88	3	74	37	17	24	20	1.93
518035--518118	19	4.6	19	75	15	79	41	21	22	14	1.89
518135--518204	33	2.1	33	91	0	113	12	18	20	48	1.80
518146--518204	19	3.4	19	68	22	56	13	18	20	47	1.82
518198--518252	20	2.8	20	94	0	92	18	25	21	34	1.96
518638--518706	21	3.3	20	74	6	66	24	40	15	18	1.90
518628--518718	41	2.2	42	86	2	130	21	40	15	21	1.90
520111--520149	14	2.8	14	84	0	51	35	0	17	46	1.49
520281--520326	19	2.4	19	92	0	74	52	17	15	15	1.76
520293--520333	19	2.2	19	86	0	55	56	14	17	12	1.68
520364--520439	20	3.8	20	91	0	107	15	18	23	42	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
520664--520758	20	4.8	20	97	0	163	27	20	29	23	1.98
520681--520803	40	3.0	42	85	3	144	23	17	26	31	1.97
520830--520882	21	2.5	22	78	6	65	33	18	24	22	1.97
521191--521229	20	2.0	19	85	5	51	46	10	15	28	1.78
525738--525857	64	1.9	64	91	0	195	30	14	12	43	1.82
527174--527241	27	2.5	27	82	13	86	51	0	7	41	1.30
527662--527700	17	2.3	17	91	8	62	25	2	5	66	1.25
528218--528278	21	3.0	20	72	11	52	24	6	4	63	1.38
528527--528576	20	2.5	19	81	9	55	16	6	4	74	1.17
528823--529140	158	2.0	159	99	0	629	27	26	19	26	1.99
531997--532054	31	1.9	31	86	10	84	32	13	18	34	1.91
532033--532085	27	2.0	27	88	0	79	33	9	11	45	1.72
532653--532895	106	2.3	106	90	1	389	34	24	16	23	1.95
533062--533248	102	1.8	102	82	4	243	27	18	12	41	1.87
533421--533504	34	2.4	35	90	5	127	41	17	9	30	1.82
534646--534689	2	22.0	2	90	0	70	45	0	4	50	1.22
537452--537514	23	2.6	24	78	19	60	50	1	0	47	1.10
537469--537532	22	2.9	23	81	6	71	48	1	0	50	1.10
537646--537714	19	3.6	19	75	14	70	52	1	0	46	1.09
537632--537707	22	3.6	21	74	22	61	52	1	0	46	1.08
537596--537694	27	3.6	27	75	14	87	50	1	1	47	1.14
537770--537870	32	3.3	31	72	21	79	54	2	0	42	1.15
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
539381--539441	30	2.0	31	84	15	83	32	0	4	62	1.17
541030--541103	32	2.3	33	83	4	96	13	12	36	37	1.82
541161--541226	27	2.4	28	89	5	116	12	6	34	46	1.66
541189--541270	39	2.2	39	91	4	132	9	9	37	42	1.71
541159--541272	39	3.4	35	76	21	104	10	7	36	44	1.68
543871--543911	20	2.0	20	95	0	73	31	0	17	51	1.46
545566--545648	19	4.4	19	85	0	103	45	2	15	36	1.60
549456--549529	34	2.1	34	95	2	130	48	13	9	28	1.73
551083--551133	26	2.0	26	96	3	95	43	17	11	27	1.84
557685--557732	2	24.5	2	91	4	80	50	2	0	47	1.12

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