genome.fa.s8077.2.7.7.80.10.50.1000.3.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: VEPZ01008077.1 Hibiscus syriacus cultivar Beakdansim tig00110579_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  593651

Tables:   1   2   3   4   

This is table  3  of  4  ( 372 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)
420219--420264	18	2.6	18	83	10	58	41	0	2	56	1.11
421067--421105	18	2.2	18	85	0	51	43	20	28	7	1.79
421282--421315	17	2.0	17	100	0	68	17	58	5	17	1.57
426806--426856	20	2.5	20	96	0	93	47	11	21	19	1.81
426806--426862	20	2.9	18	85	14	78	47	10	22	19	1.80
428218--428278	30	2.0	30	90	0	95	13	19	32	34	1.90
428975--429335	174	2.1	173	96	0	659	39	4	18	36	1.72
430016--430412	14	28.8	14	72	11	257	48	4	4	43	1.43
433676--433720	17	2.6	17	96	3	81	31	20	22	26	1.98
434876--434999	31	4.0	31	76	16	121	32	18	18	30	1.95
434989--435060	30	2.4	30	90	0	108	25	20	23	30	1.99
443062--444313	106	11.9	106	94	2	2035	23	18	25	33	1.97
443999--444285	94	2.9	96	88	7	416	22	19	24	33	1.97
443875--444284	200	2.0	200	94	0	712	23	18	25	33	1.97
451788--451859	33	2.2	33	92	0	117	15	38	23	22	1.92
451991--452015	10	2.5	10	100	0	50	20	36	28	16	1.93
454361--454436	35	2.1	35	81	11	84	64	2	3	28	1.25
454660--454688	2	14.5	2	100	0	58	51	0	0	48	1.00
454883--454938	2	29.5	2	85	10	82	55	0	0	44	0.99
454930--454970	11	3.6	11	87	6	55	65	4	4	24	1.32
454984--455098	25	4.4	25	70	18	67	66	0	6	26	1.21
455645--455749	37	2.8	37	91	0	165	29	14	15	40	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
456479--457415	106	8.9	106	89	1	1348	23	18	24	33	1.97
458128--458204	22	3.5	22	87	0	118	22	14	27	36	1.92
462067--462132	22	3.0	22	97	2	125	27	25	27	19	1.99
462418--462489	29	2.5	29	93	0	117	38	12	9	38	1.76
462784--462821	20	1.9	20	88	0	58	10	31	34	23	1.89
462785--462954	66	2.6	64	86	6	216	17	27	27	27	1.98
468945--469012	22	3.0	22	97	2	127	26	27	26	19	1.99
469232--469291	30	2.0	31	90	3	95	33	23	3	40	1.71
469306--469377	29	2.5	29	93	0	117	38	12	9	38	1.76
469680--469832	67	2.3	66	87	3	207	16	27	28	27	1.97
469811--469854	22	2.0	21	82	4	52	13	22	29	34	1.93
472375--472459	14	6.3	14	76	14	65	74	1	3	21	1.04
472375--472430	30	1.9	28	86	13	78	73	0	3	23	0.99
472416--472440	10	2.5	10	100	0	50	80	0	8	12	0.92
472377--472510	66	2.0	66	80	5	151	70	2	3	23	1.14
472746--472788	2	21.5	2	100	0	86	51	0	0	48	1.00
472998--473038	11	3.6	11	87	6	55	65	4	4	24	1.32
473057--473106	24	2.0	27	88	11	79	68	2	0	30	1.01
473025--473166	62	2.3	61	77	16	143	67	1	7	23	1.24
473716--473820	37	2.8	37	88	0	156	29	15	15	40	1.88
477811--477881	20	3.6	20	86	1	90	38	25	14	22	1.92
477850--477897	19	2.5	19	100	0	96	35	22	10	31	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
478224--478282	15	3.9	15	80	8	66	44	6	16	32	1.74
478267--478314	20	2.4	20	100	0	96	41	10	16	31	1.82
478458--478627	88	1.9	86	81	9	200	45	0	4	50	1.23
478643--478714	28	2.5	30	80	15	96	52	1	0	45	1.09
478643--478732	29	3.3	27	79	17	96	53	2	0	44	1.13
478644--478722	28	2.9	27	82	15	92	54	1	0	44	1.08
478699--478814	50	2.2	53	82	10	143	51	1	1	44	1.21
479338--479424	39	2.2	39	91	0	138	49	19	12	18	1.79
479723--479863	61	2.2	63	83	8	171	50	17	1	31	1.54
481227--481322	21	4.6	21	78	8	97	21	16	35	26	1.95
481227--481326	42	2.4	42	81	6	121	22	16	36	26	1.94
481724--481773	21	2.4	21	86	0	82	34	28	16	22	1.95
481879--481911	12	2.8	12	95	0	57	30	0	39	30	1.57
483485--483539	20	2.8	20	86	8	69	49	20	18	12	1.79
483536--483598	20	3.2	20	88	2	92	12	15	23	47	1.80
483851--483908	22	2.7	22	73	5	66	27	10	39	22	1.86
484604--484641	20	2.0	19	90	10	60	47	5	23	23	1.72
484790--484863	37	2.0	36	84	7	96	48	4	1	45	1.29
487730--487792	32	2.0	32	90	0	99	31	15	6	46	1.71
491293--491468	58	3.0	57	78	9	185	42	7	19	30	1.79
495059--495116	14	4.2	14	80	4	64	79	0	5	15	0.90
495160--495213	21	2.8	18	81	15	56	62	3	3	29	1.29
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
495164--495214	18	2.6	19	79	11	59	62	3	3	29	1.31
495412--495460	20	2.5	19	81	15	55	65	0	4	30	1.11
495420--495513	22	4.3	22	69	16	70	61	2	4	31	1.27
495470--495518	23	2.1	24	81	11	57	57	0	8	34	1.29
495972--496076	37	2.8	37	85	0	138	30	13	15	40	1.85
496807--497953	106	10.9	106	90	1	1725	23	17	24	34	1.96
498771--498869	22	4.5	22	93	5	173	22	13	26	38	1.90
499264--499610	172	2.0	173	93	3	592	25	17	20	36	1.94
499643--499710	30	2.2	30	82	7	75	1	13	7	77	1.03
499659--499717	23	2.4	26	77	8	70	0	13	10	76	1.02
499644--499720	32	2.5	30	75	12	75	2	11	9	76	1.11
504245--504310	24	2.7	25	78	2	71	74	1	7	16	1.12
504298--504410	10	13.9	8	75	22	71	60	1	1	36	1.18
504313--504357	2	23.5	2	91	8	76	53	0	0	46	1.00
504589--504650	19	3.2	19	77	20	58	61	0	4	33	1.17
504660--504708	23	2.1	24	81	11	57	57	0	8	34	1.29
505168--505268	37	2.8	36	80	8	123	31	10	15	41	1.82
509287--509361	30	2.5	31	91	2	116	46	4	4	45	1.40
514902--514940	16	2.5	16	91	4	62	38	10	20	30	1.86
515015--515059	23	2.0	23	81	0	54	26	20	15	37	1.92
515294--515552	124	2.1	125	88	5	393	30	14	13	40	1.85
516249--516296	3	16.3	3	82	4	53	29	2	4	64	1.23
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
517524--517676	72	2.1	72	97	0	288	28	11	16	43	1.84
518073--518106	2	17.0	2	100	0	68	50	0	0	50	1.00
519796--519855	32	1.9	32	86	6	88	15	15	11	58	1.64
524014--524086	36	2.0	37	83	2	94	31	19	9	39	1.84
524315--524379	25	2.5	25	80	5	67	32	13	9	44	1.76
524827--524908	28	2.9	28	84	10	114	23	15	17	43	1.87
524913--525063	53	2.8	53	85	7	198	28	28	13	29	1.95
525380--525429	16	3.2	16	85	2	66	22	26	12	40	1.88
526152--526242	20	4.5	19	75	20	87	42	6	7	42	1.59
526158--526215	24	2.5	24	86	5	75	46	6	6	39	1.57
526455--526483	2	15.0	2	92	7	51	51	0	0	48	1.00
526512--526582	18	3.6	18	67	20	52	39	11	7	42	1.68
526496--526605	42	2.6	42	97	0	202	40	12	7	39	1.71
526530--526601	24	3.2	24	64	22	66	40	13	6	38	1.72
526720--526768	7	7.0	7	80	0	62	22	0	36	40	1.54
526720--526768	21	2.3	21	89	0	80	22	0	36	40	1.54
526826--526980	2	79.0	2	79	13	171	47	3	0	47	1.25
526828--527010	35	4.9	37	77	10	158	45	4	1	49	1.29
526981--527166	90	2.1	90	83	8	227	39	5	5	48	1.50
527128--527197	18	3.8	19	75	11	65	42	0	5	51	1.25
527153--527205	27	1.9	27	88	3	79	43	0	3	52	1.19
528360--528410	3	17.3	3	83	4	68	27	1	3	66	1.20
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
530070--530095	2	13.0	2	100	0	52	50	0	0	50	1.00
531087--531220	64	2.1	64	91	2	216	33	11	8	45	1.72
531087--531239	64	2.4	64	87	4	202	33	13	7	45	1.73
532601--532641	21	2.0	21	95	0	73	29	26	21	21	1.99
532811--532835	6	4.2	6	100	0	50	36	48	16	0	1.46
532823--532857	17	2.0	18	88	5	54	42	37	20	0	1.52
533364--533420	21	2.9	19	72	10	60	31	19	22	26	1.98
547283--547312	11	2.7	11	100	0	60	13	20	6	60	1.55
547719--547785	24	2.8	24	88	8	109	25	25	29	19	1.98
547731--547774	13	3.5	13	75	12	56	25	27	29	18	1.98

Tables:   1   2   3   4