genome.fa.s8182.2.7.7.80.10.50.1000.4.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: VEPZ01008182.1 Hibiscus syriacus cultivar Beakdansim tig00110782_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1042344

Tables:   1   2   3   4   5   6   

This is table  4  of  6  ( 690 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)
526085--526212	33	3.8	33	86	6	159	46	24	18	10	1.81
526213--526289	19	4.3	19	76	17	83	9	15	29	45	1.77
526337--526644	93	3.3	93	97	2	595	47	19	12	20	1.82
527308--527374	22	3.0	22	95	2	116	25	28	26	19	1.99
529092--529136	21	2.1	21	87	0	63	15	24	28	31	1.96
530405--530451	18	2.8	16	76	23	51	29	27	0	42	1.56
530974--530999	8	3.2	8	100	0	52	38	11	0	50	1.39
532303--532369	22	3.0	22	95	2	116	25	28	26	19	1.99
534081--534125	21	2.1	21	87	0	63	15	24	28	31	1.96
534821--535356	93	5.8	93	99	0	1056	45	19	13	22	1.84
534821--535356	185	2.9	186	99	0	1056	45	19	13	22	1.84
534821--535356	278	1.9	278	99	0	1063	45	19	13	22	1.84
537063--537152	14	5.7	14	72	23	72	43	23	24	8	1.82
537055--537169	33	3.5	33	97	0	221	46	20	23	9	1.80
537077--537174	19	5.7	19	71	22	90	43	22	23	10	1.83
537186--537239	14	3.5	14	73	22	54	7	25	24	42	1.80
537170--537250	33	2.5	33	93	0	135	7	23	22	46	1.76
537226--537303	41	1.9	41	94	0	138	11	26	16	44	1.82
537227--537302	21	3.7	21	82	3	100	10	26	17	46	1.80
537382--537452	33	2.2	33	89	0	106	47	16	23	11	1.79
537634--537688	22	2.5	22	78	0	65	18	16	41	23	1.89
537834--538027	20	9.6	20	81	5	212	19	19	25	36	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
537836--538007	60	2.8	60	83	0	236	19	19	25	35	1.95
537834--538027	60	3.2	59	81	3	235	19	19	25	36	1.95
538014--538096	21	4.0	21	73	6	78	25	16	24	33	1.96
537994--538092	42	2.4	43	77	11	100	21	18	23	37	1.94
542064--542112	20	2.5	20	82	0	62	24	24	22	28	1.99
542818--542918	43	2.3	43	98	0	193	23	28	20	26	1.99
542942--543061	64	1.9	64	82	3	152	24	17	20	37	1.94
543863--543893	16	1.9	16	93	0	53	51	6	6	35	1.53
546216--546254	18	2.0	20	85	9	55	38	2	2	56	1.27
547401--547453	21	2.5	21	81	6	63	20	18	18	41	1.91
547443--547535	20	4.7	20	94	0	150	39	19	19	21	1.92
547522--547588	20	3.3	20	95	0	116	31	26	19	22	1.98
548428--548481	24	2.2	24	93	0	90	20	18	20	40	1.91
548588--548663	38	2.0	38	100	0	152	36	7	28	26	1.84
550909--550963	20	2.8	20	97	0	101	30	25	23	20	1.98
550935--551031	33	2.8	33	89	4	131	42	20	23	13	1.88
551207--551243	14	2.6	14	86	0	56	48	21	0	29	1.50
553155--553283	40	3.2	40	88	0	177	35	21	20	22	1.96
553155--553261	20	5.3	20	94	0	169	38	22	19	19	1.94
553155--553281	20	6.3	20	93	0	128	36	21	19	22	1.95
553326--553464	20	7.6	20	72	22	92	16	18	23	41	1.90
553296--553461	87	1.9	87	91	2	271	16	19	21	43	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
553348--553441	33	2.8	34	81	3	127	12	19	23	44	1.85
555345--555394	19	2.5	20	93	3	84	50	22	18	10	1.76
555752--555793	22	1.9	22	90	0	66	19	9	42	28	1.82
555993--556185	20	9.6	20	93	0	332	20	18	19	40	1.91
556175--556227	21	2.5	21	93	0	88	35	16	24	22	1.95
562571--562668	3	32.0	3	75	17	71	30	4	1	64	1.19
562674--562700	2	13.5	2	100	0	54	48	0	0	51	1.00
566290--566375	14	5.4	14	73	24	73	9	25	23	41	1.84
566290--566383	33	2.8	33	93	0	170	9	25	21	43	1.82
568081--568459	93	4.1	93	98	0	726	22	12	18	45	1.83
568503--568630	19	7.3	19	70	19	98	46	28	16	8	1.76
568539--568630	32	2.8	31	88	8	130	45	28	18	7	1.76
568626--568760	19	7.6	19	75	16	128	11	19	23	45	1.82
568648--568704	14	3.7	14	77	20	60	10	21	22	45	1.82
568631--568723	33	2.8	33	95	0	168	10	20	21	47	1.80
570681--570716	14	2.6	14	95	0	63	33	0	22	44	1.53
570823--570922	19	5.5	19	80	12	129	44	17	24	15	1.86
570823--570939	53	2.2	53	92	1	191	42	17	25	14	1.87
570929--571077	19	8.6	19	71	21	130	14	22	18	44	1.86
570935--571026	33	2.8	33	94	0	166	14	20	18	46	1.83
570967--571077	52	2.1	53	96	1	206	13	22	18	45	1.84
570929--571094	85	2.0	85	85	2	226	16	20	18	44	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
571135--571232	19	5.4	19	82	13	134	45	16	22	15	1.84
571135--571251	53	2.2	53	96	1	218	44	17	23	14	1.85
574492--574741	20	12.5	20	86	1	268	19	17	24	38	1.93
574728--574810	21	4.0	21	73	6	78	25	16	24	33	1.96
574708--574806	42	2.4	43	77	11	100	21	18	23	37	1.94
584026--584083	30	1.9	30	96	0	107	34	13	12	39	1.82
584281--584336	16	3.4	16	68	18	51	21	19	26	32	1.97
584249--584353	34	3.1	34	98	1	201	20	18	29	32	1.96
587210--587242	14	2.4	14	94	0	57	33	6	30	30	1.82
588816--588864	3	17.3	3	80	19	61	28	0	0	71	0.86
588918--588999	33	2.5	33	80	4	94	39	18	14	28	1.90
589526--589555	13	2.3	13	94	0	51	30	0	0	70	0.88
593149--593549	110	3.6	110	88	1	588	35	22	16	24	1.95
593149--593549	221	1.8	220	89	1	624	35	22	16	24	1.95
593868--593949	43	1.9	43	87	0	119	30	30	14	24	1.95
593509--594608	241	4.6	241	90	0	1639	31	24	19	25	1.98
595139--595204	33	2.0	33	96	0	123	42	16	12	28	1.84
595139--595219	33	2.5	33	87	4	110	39	16	14	29	1.88
595746--595775	13	2.3	13	94	0	51	30	0	0	70	0.88
596467--596514	22	2.2	21	77	3	51	56	2	6	35	1.36
597031--597055	2	12.5	2	100	0	50	52	0	0	48	1.00
603168--603460	36	8.3	35	78	14	227	45	4	6	43	1.50
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
603193--603459	74	3.8	73	77	14	224	45	4	5	44	1.47
603129--603411	36	7.5	37	81	12	251	46	3	6	43	1.47
603340--603491	62	2.4	65	80	13	192	44	3	5	45	1.46
603341--603496	29	5.0	30	74	17	115	45	3	5	44	1.45
603533--603561	14	2.1	14	100	0	58	13	6	0	79	0.93
604785--604819	2	17.5	2	93	0	61	45	0	2	51	1.16
606592--606637	19	2.4	19	92	0	74	13	13	8	65	1.48
609993--610802	81	9.8	81	79	6	783	29	25	21	23	1.99
609993--610937	165	5.7	165	86	3	1120	30	24	21	23	1.99
609993--610817	329	2.5	326	88	3	1154	29	25	21	23	1.99
611535--611906	38	10.2	37	78	14	293	45	3	6	44	1.46
611783--611874	32	2.9	30	80	11	96	43	5	5	45	1.50
611950--611978	14	2.1	14	100	0	58	13	6	0	79	0.93
615904--615955	27	2.0	26	82	14	63	59	3	1	34	1.27
615952--615992	18	2.2	19	86	4	57	65	0	4	29	1.13
616048--616092	22	2.1	21	84	8	56	68	0	4	26	1.08
616859--616962	29	3.6	29	92	0	172	38	0	12	49	1.41
616880--616994	29	3.9	29	87	1	122	40	1	12	45	1.52
616859--616992	58	2.3	58	82	1	160	39	1	11	47	1.50
621196--621282	32	2.7	32	78	7	88	41	13	11	33	1.81
621504--621555	17	3.1	17	71	15	54	46	5	0	48	1.26
621504--621576	33	2.2	33	90	0	110	43	5	0	50	1.25
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
624859--624886	2	14.0	2	100	0	56	50	0	0	50	1.00
634472--634502	16	2.0	15	93	6	53	51	3	0	45	1.17
635048--635106	31	1.9	30	89	3	91	28	8	3	59	1.43
635489--635534	16	2.7	17	86	6	58	36	6	26	30	1.82
636073--636159	39	2.3	38	90	4	140	40	36	11	11	1.78
646145--646214	32	2.2	32	84	2	88	45	14	4	35	1.64
650076--650201	23	5.4	23	76	7	137	58	20	11	9	1.60
650067--650158	34	2.6	37	81	11	120	55	18	16	9	1.68
650113--650216	10	9.4	10	68	19	55	59	20	8	11	1.58
650410--650458	14	3.5	14	88	0	71	57	14	14	14	1.66

Tables:   1   2   3   4   5   6