genome.fa.s8506.2.7.7.80.10.50.1000.3.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: VEPZ01008506.1 Hibiscus syriacus cultivar Beakdansim tig00111358_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1253200

Tables:   1   2   3   4   5   6   

This is table  3  of  6  ( 681 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)
448013--448345	142	2.4	143	81	8	362	31	24	17	26	1.97
448762--448803	19	2.2	19	95	0	75	30	26	4	38	1.77
448808--448868	21	3.0	21	85	2	70	24	19	24	31	1.98
456946--457024	21	3.8	21	81	3	79	44	12	13	29	1.81
460629--460672	19	2.4	18	88	3	61	75	0	4	20	0.98
461342--461449	24	4.3	24	67	17	85	59	13	0	26	1.35
461267--461465	76	2.9	68	75	17	162	57	12	1	28	1.42
461342--461485	76	1.9	75	85	7	202	58	11	1	28	1.42
462664--462693	14	2.2	13	94	5	51	46	26	6	20	1.75
463399--463448	5	10.2	5	81	12	59	74	0	6	20	1.03
463402--463447	14	3.2	14	84	3	65	73	0	6	19	1.04
466420--466470	19	2.7	18	82	8	66	70	1	3	23	1.14
467164--467226	33	1.9	33	84	12	85	63	11	0	25	1.27
467107--467281	77	2.3	75	81	7	201	58	11	1	29	1.40
467827--467903	21	3.7	21	82	0	91	36	12	18	32	1.89
471658--471727	20	3.3	21	82	13	90	74	2	1	21	1.03
471659--471729	26	3.0	23	73	18	65	74	2	1	21	1.02
471723--471782	24	2.5	24	81	8	68	75	5	6	13	1.18
471856--471910	16	3.4	16	82	2	56	65	0	3	30	1.10
472346--472394	22	2.2	22	85	10	64	69	4	8	18	1.30
472447--472490	21	2.0	22	86	4	63	72	0	6	20	1.07
473522--473566	23	2.0	23	86	0	63	15	15	33	35	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
474461--474696	87	2.8	85	78	5	235	27	16	18	37	1.92
480407--480442	15	2.4	15	90	0	54	80	2	5	11	0.98
480591--480691	11	8.6	11	70	13	51	74	4	4	15	1.17
480639--480683	20	2.3	20	88	3	65	75	0	8	15	1.03
480655--480694	17	2.5	15	80	11	53	77	0	2	20	0.88
480661--480708	16	2.9	16	78	6	51	72	0	10	16	1.10
481213--481292	3	26.7	3	94	5	144	68	0	31	0	0.90
481291--481341	16	3.1	16	81	13	59	84	7	1	5	0.85
481321--481360	17	2.2	19	86	13	57	75	5	7	12	1.18
481409--481452	21	2.1	21	87	4	63	72	0	6	20	1.07
481812--481907	4	26.0	4	69	16	64	50	0	0	50	1.00
481812--481907	6	17.3	6	76	16	64	50	0	0	50	1.00
481812--481900	42	2.2	41	91	4	144	49	0	0	50	1.00
487304--487329	3	8.7	3	100	0	52	0	0	30	69	0.89
487442--487498	2	28.5	2	100	0	114	49	0	0	50	1.00
488997--489156	80	2.0	80	98	0	311	46	16	16	20	1.84
494343--494383	20	2.1	19	86	4	55	34	24	0	41	1.55
494431--494466	17	2.1	18	94	5	65	27	5	2	63	1.30
494528--494860	111	3.0	111	94	0	585	35	8	10	45	1.70
496718--496755	9	4.2	9	86	0	58	34	21	34	10	1.87
499724--499858	51	2.6	51	81	2	137	21	28	33	17	1.95
500110--500152	23	1.9	22	95	4	77	58	4	11	25	1.52
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
513701--513742	21	2.0	22	90	4	68	23	14	28	33	1.94
517608--517650	20	2.1	19	87	12	59	37	2	23	37	1.68
517727--517892	65	2.5	65	78	11	160	33	18	19	28	1.96
519398--519450	18	2.9	19	83	11	74	18	22	35	22	1.95
528145--528250	25	4.2	25	96	0	185	16	22	34	25	1.95
540819--540860	21	2.0	21	90	0	66	26	26	23	23	2.00
540973--541058	37	2.5	34	87	9	122	20	25	33	19	1.97
544508--544562	14	3.5	15	73	23	51	20	23	36	20	1.95
544507--544589	32	2.5	35	86	7	127	19	26	34	19	1.95
544555--544594	20	2.0	20	90	9	64	17	30	35	17	1.93
545048--545081	8	4.4	8	96	3	61	32	0	11	55	1.36
545188--545525	157	2.1	158	87	0	489	29	16	5	47	1.70
546435--546484	24	2.0	26	88	7	77	52	12	8	28	1.66
547019--547127	24	4.5	24	85	0	128	50	16	11	21	1.77
549517--549588	24	3.0	24	81	0	81	18	12	18	51	1.76
551748--551804	18	3.1	19	77	7	64	14	24	35	26	1.93
560151--560194	21	2.1	21	100	0	88	25	25	9	40	1.84
562452--562867	182	2.3	182	88	3	615	41	14	16	27	1.87
564792--564843	21	2.5	20	82	11	61	48	0	3	48	1.20
565219--565279	21	2.9	21	95	0	104	42	11	31	14	1.81
565313--565377	32	2.0	33	90	3	105	30	0	44	24	1.54
566962--567010	19	2.6	19	93	0	80	32	2	12	53	1.50
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
567728--568853	200	5.7	199	85	4	1361	36	14	17	31	1.90
567805--568853	199	5.3	198	85	4	1249	35	14	18	32	1.91
570377--570416	12	3.3	12	89	0	53	40	2	27	30	1.70
571393--571444	25	2.1	25	100	0	104	32	7	11	48	1.68
571405--571444	14	3.1	14	72	20	50	32	7	12	47	1.69
571706--571744	15	2.6	15	87	0	51	38	17	7	35	1.79
571745--572512	200	3.8	199	85	2	932	38	13	15	32	1.86
571745--572512	400	1.9	401	84	4	1039	38	13	15	32	1.86
575003--575058	24	2.4	24	82	5	62	19	3	1	75	1.05
577331--577378	23	2.1	23	88	3	71	27	2	12	58	1.46
578607--578650	21	2.1	21	95	0	79	40	11	34	13	1.81
578684--578768	33	2.6	33	98	0	161	31	1	44	22	1.60
578952--579006	18	3.0	19	94	5	96	54	0	40	5	1.23
583653--584575	199	4.6	195	82	8	974	39	14	14	30	1.87
583653--584575	400	2.3	396	83	6	1134	39	14	14	30	1.87
584570--584730	86	1.9	86	92	5	272	32	14	11	41	1.82
587487--587623	60	2.3	61	84	6	181	31	18	16	33	1.93
587520--587633	60	1.9	60	90	0	183	29	20	16	33	1.95
603024--603085	18	3.5	18	88	4	99	16	17	35	30	1.92
606390--606436	17	2.7	17	93	3	76	14	25	31	27	1.95
609116--609146	2	15.5	2	100	0	62	51	0	0	48	1.00
609279--609323	14	2.9	16	78	18	51	75	4	2	17	1.07
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
609279--609352	13	5.3	13	77	18	53	68	8	2	20	1.27
609290--609385	25	3.8	25	75	13	88	66	9	4	19	1.36
610448--610489	2	21.0	2	100	0	84	50	0	0	50	1.00
611600--611669	19	3.7	18	75	24	65	67	1	2	28	1.14
611598--611676	35	2.2	35	80	12	90	69	1	2	26	1.09
611597--611676	36	2.2	37	78	14	87	70	1	2	26	1.08
622213--622475	148	1.8	143	86	4	382	46	7	6	38	1.60
623135--623184	2	25.0	2	95	0	91	52	0	0	48	1.00
623745--623801	18	3.4	16	81	11	62	63	1	3	31	1.22
623747--623803	27	2.2	26	81	9	62	66	1	3	28	1.18
623941--623975	17	2.1	17	89	5	54	68	0	0	31	0.90
624068--624146	40	2.0	40	100	0	158	31	17	20	30	1.96
624271--624327	20	3.0	20	78	14	66	42	0	0	57	0.98
624222--624338	39	3.1	37	73	13	96	41	2	1	54	1.24
624369--624394	3	8.7	3	100	0	52	65	0	0	34	0.93
625504--625623	63	1.9	63	81	6	145	40	34	12	13	1.82
627849--627984	29	4.7	29	87	3	166	36	1	11	50	1.48
628626--628700	35	2.1	35	90	0	114	29	0	25	45	1.54
630145--630185	20	2.0	20	95	0	73	24	39	24	12	1.89
636021--636074	23	2.4	22	87	6	81	22	35	18	24	1.96
638028--638077	16	2.8	19	76	17	70	18	0	30	52	1.46
638330--638387	19	3.1	19	94	0	107	37	0	34	27	1.57
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
638376--638432	28	2.0	28	96	0	105	36	8	22	31	1.85
656236--656271	17	2.1	17	89	0	54	16	13	30	38	1.88
656348--656406	20	2.9	20	73	12	57	25	16	25	32	1.97
657842--657876	15	2.3	15	85	0	52	45	0	0	54	0.99
662431--662469	14	2.8	14	88	7	53	38	28	7	25	1.83
664756--664872	62	2.0	61	93	6	204	46	14	6	32	1.71
668974--669060	35	2.5	34	80	12	97	55	10	8	26	1.61
669673--669697	9	2.8	9	100	0	50	0	24	52	24	1.48
671367--671407	18	2.3	18	87	4	57	60	2	7	29	1.36
673341--673506	74	2.2	75	84	3	219	29	5	13	51	1.64

Tables:   1   2   3   4   5   6