genome.fa.s8311.2.7.7.80.10.50.1000.3.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: VEPZ01008311.1 Hibiscus syriacus cultivar Beakdansim tig00111002_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1790494

Tables:   1   2   3   4   5   6   7   8   

This is table  3  of  8  ( 882 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)
454559--454919	82	4.4	82	89	4	516	33	15	14	35	1.89
459817--459850	2	17.0	2	100	0	68	50	0	0	50	1.00
460079--460137	30	1.9	32	89	6	95	61	3	6	28	1.38
461566--461870	49	6.2	49	73	10	212	35	13	20	31	1.91
461566--461870	100	3.1	97	86	4	416	35	13	20	31	1.91
469784--469833	17	3.3	15	84	13	66	44	0	0	56	0.99
469784--469824	17	2.5	17	92	7	68	46	0	0	53	1.00
469892--469995	29	3.5	30	81	9	124	33	6	0	59	1.24
469880--470035	59	2.7	58	77	12	144	37	6	0	56	1.25
469944--470023	30	2.7	29	81	9	90	36	6	0	57	1.24
470040--470087	9	5.0	9	78	14	51	37	0	0	62	0.95
470040--470097	28	2.1	27	81	12	64	32	1	0	65	1.03
474558--474598	20	2.0	20	85	0	55	36	19	26	17	1.94
475705--475746	19	2.2	20	83	12	52	69	0	0	30	0.89
475720--475762	12	3.4	12	75	12	50	74	0	0	25	0.82
475705--475763	21	2.6	23	73	10	59	71	0	0	28	0.87
478836--478896	31	2.0	31	87	9	90	13	13	9	63	1.51
480886--480927	19	2.2	19	100	0	84	47	21	14	16	1.82
480964--481012	19	2.6	19	87	3	73	73	4	16	6	1.19
481007--481070	7	8.9	7	78	11	67	81	4	12	1	0.92
481006--481070	8	7.8	8	75	16	60	81	4	12	1	0.91
480956--481059	33	3.1	34	74	12	83	75	4	14	4	1.13
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
482236--482432	61	3.1	63	81	10	251	26	16	15	41	1.88
482587--482944	134	2.7	131	82	5	427	26	32	16	24	1.96
482607--482944	131	2.6	132	83	4	414	26	33	15	24	1.95
484542--484581	15	2.9	15	82	14	50	20	0	0	80	0.72
486867--486955	34	2.6	35	80	5	92	34	13	10	41	1.78
486894--486960	17	3.9	17	90	0	98	37	13	7	41	1.73
489590--489639	26	1.9	26	88	8	75	46	0	6	48	1.27
489593--489669	11	7.4	11	73	14	56	45	2	6	45	1.43
489742--489774	9	3.8	9	88	8	50	54	3	6	36	1.41
489813--489904	15	5.9	15	71	21	64	46	6	3	43	1.45
489815--489873	18	3.2	19	78	9	59	47	6	1	44	1.39
489877--490007	25	5.2	25	67	16	72	46	3	7	41	1.50
490231--490425	77	2.3	83	75	18	190	42	7	9	41	1.64
490297--490467	20	8.9	20	69	15	87	42	7	7	42	1.60
490338--490419	13	6.2	13	67	20	53	43	8	6	41	1.60
490338--490483	52	2.6	54	83	9	154	42	7	6	43	1.58
490442--490577	57	2.3	59	82	13	170	39	6	7	46	1.58
490507--490554	21	2.3	21	88	0	69	41	6	6	45	1.54
490473--490636	57	2.9	56	83	8	192	40	5	6	47	1.53
490565--490615	15	3.3	15	71	15	50	41	3	1	52	1.31
490594--490726	36	3.9	36	77	11	152	44	3	7	44	1.50
490523--490709	89	2.1	88	81	9	213	41	4	6	47	1.48
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
490679--490737	24	2.4	26	81	16	81	49	1	5	44	1.34
490690--490778	40	2.4	36	83	11	99	46	4	4	44	1.44
490754--490872	31	3.7	30	71	16	96	42	3	3	51	1.35
490910--490938	15	1.9	15	100	0	58	48	3	0	48	1.18
491463--491589	18	7.4	18	69	14	74	44	40	5	9	1.60
491480--491585	6	17.7	6	73	0	77	44	41	5	8	1.58
491480--491585	24	4.4	24	84	2	115	44	41	5	8	1.58
495046--495123	24	3.3	24	98	1	149	48	8	0	42	1.34
495054--495118	12	5.3	13	67	25	52	50	7	0	41	1.31
495354--495386	16	2.1	16	100	0	66	39	12	24	24	1.89
496029--496210	90	2.0	91	95	1	330	37	12	17	32	1.86
501231--501273	23	1.9	22	86	13	61	39	13	6	39	1.72
501231--501272	21	2.0	22	90	4	68	38	14	7	40	1.73
502541--502608	31	2.3	31	84	5	95	33	19	8	38	1.82
505688--505727	22	1.9	20	89	5	53	37	15	7	40	1.75
511708--511778	5	13.6	5	73	8	52	67	2	7	22	1.28
524193--524258	33	2.0	33	100	0	132	54	27	6	12	1.60
530532--530561	15	2.0	15	100	0	60	33	13	26	26	1.93
533633--533677	14	3.2	14	96	0	81	66	0	0	33	0.92
535561--535592	16	1.9	17	93	6	57	28	28	25	18	1.98
537147--537212	18	3.8	17	76	13	55	78	3	3	15	0.99
537187--537253	35	1.9	35	90	6	109	74	4	10	10	1.20
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
537286--537337	12	4.6	12	83	11	56	73	0	7	19	1.07
537309--537354	7	5.8	8	80	19	60	76	0	0	23	0.79
537309--537372	20	3.1	21	82	8	78	71	0	4	23	1.04
537394--537436	18	2.4	18	92	0	68	72	0	6	20	1.08
538012--538061	5	9.2	5	79	16	55	72	0	2	26	0.96
538012--538061	11	4.6	10	79	16	55	72	0	2	26	0.96
538012--538061	22	2.3	22	86	6	66	72	0	2	26	0.96
538034--538098	17	3.7	17	71	6	58	58	6	1	33	1.32
538368--539108	200	3.7	199	85	2	930	28	19	18	33	1.96
539172--539536	86	4.3	86	90	0	516	19	21	26	32	1.97
541657--541760	52	2.0	52	98	0	199	30	26	10	31	1.90
545695--545947	82	3.1	82	85	3	316	23	18	20	36	1.95
545814--546089	142	1.9	142	86	0	390	26	17	19	36	1.94
545956--546183	82	2.8	82	87	2	316	26	15	21	35	1.94
545743--546172	224	1.9	224	87	0	628	25	16	20	36	1.94
561480--561532	19	2.8	19	94	0	97	32	16	24	26	1.97
567279--567322	21	2.2	20	91	4	70	68	6	0	25	1.14
567346--567400	23	2.4	24	81	9	69	61	0	0	38	0.96
580279--580353	35	2.1	35	85	0	96	44	22	0	33	1.53
580349--580426	35	2.2	35	81	0	93	42	0	16	41	1.48
581113--581163	21	2.3	22	80	6	59	29	0	0	70	0.87
581965--582005	19	2.2	19	86	8	57	60	0	0	39	0.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
582922--583070	41	3.6	40	70	11	122	27	18	20	33	1.96
582927--583121	82	2.4	82	84	4	241	27	18	22	31	1.97
584487--584545	10	6.7	10	68	28	53	59	22	10	8	1.56
584491--584539	16	3.1	16	96	0	89	59	24	10	6	1.53
584487--584545	26	2.3	26	88	5	84	59	22	10	8	1.56
585261--585293	10	3.3	10	95	0	57	57	24	9	9	1.58
588293--588348	19	3.0	19	69	21	55	48	1	3	46	1.30
588274--588348	38	2.0	38	92	2	125	46	2	2	48	1.30
589259--589469	110	1.9	112	92	1	354	45	9	18	27	1.79
590768--591043	57	4.8	57	90	0	435	33	9	18	39	1.83
591250--591925	68	10.0	68	89	1	1000	30	13	25	30	1.94
591252--591925	135	5.0	136	90	1	1000	30	13	25	30	1.93
591252--591925	203	3.3	203	88	2	1007	30	13	25	30	1.93
591865--592013	81	1.8	81	88	0	226	37	10	21	30	1.87
591884--592033	81	1.9	81	82	2	194	40	11	18	30	1.85
592045--592167	47	2.7	46	93	3	212	47	8	21	21	1.77
592150--592262	45	2.5	45	88	1	172	39	11	21	27	1.87
595354--595400	24	2.0	24	82	0	58	23	21	23	31	1.98
600585--600622	20	1.9	20	89	10	60	13	34	31	21	1.91
605382--605505	57	2.2	57	88	0	185	36	9	17	36	1.83
605667--606007	68	5.0	68	93	0	556	29	14	25	30	1.95
606109--606328	47	4.8	46	92	2	345	46	7	21	24	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
606109--606328	93	2.4	92	91	3	361	46	7	21	24	1.76
606307--606424	45	2.6	45	82	4	130	39	11	22	26	1.87
610268--610334	2	33.5	2	100	0	134	49	0	0	50	1.00
611218--611247	8	3.8	8	100	0	60	46	0	0	53	1.00
611256--611316	24	2.7	23	80	14	72	40	0	1	57	1.08
611685--611848	60	2.7	60	85	0	247	30	20	4	43	1.73
615752--615783	16	2.0	16	93	0	55	18	28	34	18	1.95
617402--617426	12	2.1	12	100	0	50	32	24	16	28	1.96
617837--617975	44	3.1	44	96	1	251	28	24	10	36	1.88
620408--620448	16	2.7	15	85	10	57	34	4	7	53	1.50

Tables:   1   2   3   4   5   6   7   8