genome.fa.s9463.2.7.7.80.10.50.1000.4.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: VEPZ01009463.1 Hibiscus syriacus cultivar Beakdansim tig00113726_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3931635

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   

This is table  4  of  20  ( 2327 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)
514783--514856	12	6.1	12	73	14	53	37	6	10	44	1.66
514960--515033	2	38.5	2	69	17	50	43	5	4	47	1.45
515790--515838	14	3.6	13	79	17	55	48	0	8	42	1.32
515780--515838	27	2.2	28	81	9	77	49	0	8	42	1.33
515799--515837	13	2.9	13	82	17	53	48	0	10	41	1.37
516058--516092	16	2.2	16	89	0	52	37	17	17	28	1.92
521463--521501	18	2.2	18	86	4	53	25	2	5	66	1.25
523796--523881	43	2.0	43	100	0	172	30	13	6	48	1.69
527126--527163	19	2.1	17	90	9	58	55	0	0	44	0.99
527896--527929	17	1.9	17	88	5	50	35	0	5	58	1.22
533980--534020	3	13.3	3	85	14	57	34	0	2	63	1.08
534320--534369	20	2.5	20	90	0	73	20	44	22	14	1.86
537585--537646	30	2.1	30	87	6	90	16	16	12	54	1.71
540715--540799	16	4.6	18	69	16	57	74	9	15	1	1.13
540762--540799	16	2.3	17	90	4	60	78	10	10	0	0.95
541970--542009	16	2.5	16	83	0	53	47	25	2	25	1.64
542510--542622	36	3.1	36	86	7	142	29	22	10	38	1.87
543192--543252	29	2.1	29	90	6	97	40	14	9	34	1.79
543401--543461	31	1.9	31	83	9	79	32	14	11	40	1.82
543246--543449	67	3.1	65	75	10	166	33	13	12	40	1.82
543593--543681	39	2.3	39	74	11	94	35	14	8	40	1.78
543748--543867	36	3.5	32	73	20	100	30	15	12	40	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
544009--544087	28	2.8	28	79	7	97	22	12	16	48	1.80
544116--544437	134	2.4	134	85	3	441	25	31	17	25	1.97
544116--544477	134	2.7	134	83	3	388	25	32	17	24	1.97
548212--548246	12	3.0	12	87	4	54	65	8	14	11	1.46
554174--554212	18	2.2	18	85	0	51	2	2	12	82	0.89
560080--560135	29	2.0	27	83	13	69	69	7	5	17	1.31
560437--560494	26	2.3	26	80	11	68	79	5	3	12	1.02
560789--560834	6	7.7	6	100	0	92	34	0	65	0	0.93
560920--561408	164	3.0	162	85	5	628	35	5	33	25	1.78
561964--562018	28	2.0	28	82	13	69	36	3	1	58	1.26
562082--564496	4	606.8	4	93	1	3980	47	24	1	25	1.62
564497--564571	24	3.1	24	92	0	114	28	6	21	44	1.77
564506--564571	4	16.5	4	83	0	87	28	4	21	45	1.71
570889--570926	19	2.0	19	89	0	58	47	10	15	26	1.78
571081--571106	13	2.0	13	100	0	52	30	30	7	30	1.85
573385--573455	33	2.2	33	100	0	142	43	21	4	30	1.71
573455--573662	61	3.5	59	74	12	158	39	12	6	41	1.68
573749--573846	39	2.5	38	85	4	133	47	9	3	39	1.51
573770--573881	39	3.1	36	78	10	93	44	10	5	39	1.62
574229--574436	45	4.6	45	81	3	231	42	14	8	35	1.75
577036--577073	3	12.7	3	89	10	60	63	0	0	36	0.95
577036--577073	17	2.3	16	95	4	67	63	0	0	36	0.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
577217--577741	99	5.3	99	93	1	819	31	18	16	34	1.93
577217--577741	196	2.7	198	91	2	819	31	18	16	34	1.93
578661--579184	99	5.3	99	93	1	824	31	17	16	34	1.92
578661--579184	197	2.7	198	92	1	824	31	17	16	34	1.92
583658--583724	28	2.7	24	75	15	66	62	7	14	14	1.52
586603--586637	15	2.3	15	100	0	70	34	17	31	17	1.93
587578--587609	14	2.4	13	94	5	55	62	0	0	37	0.95
587580--587615	11	3.4	11	88	7	56	61	2	0	36	1.11
589242--589298	30	1.9	29	89	10	89	50	0	0	49	1.00
589237--589307	31	2.4	29	81	13	83	52	2	0	45	1.15
591270--591309	19	2.1	19	95	0	71	27	10	25	37	1.88
595101--595136	14	2.6	14	91	4	56	47	0	0	52	1.00
601757--601863	40	2.7	40	84	4	135	33	14	28	23	1.93
603249--603412	89	1.8	90	86	1	240	39	14	22	23	1.90
603829--603865	14	2.7	14	91	4	58	45	0	0	54	1.00
605356--605835	238	2.0	238	96	0	888	32	16	16	35	1.91
607671--607709	15	2.3	18	87	12	57	48	10	10	30	1.70
607671--607739	17	4.2	16	81	9	68	46	7	8	37	1.63
607711--607770	2	31.0	2	74	12	54	43	1	5	50	1.34
607895--607948	27	1.9	27	85	7	72	44	9	3	42	1.54
608196--608224	5	6.0	5	92	8	51	79	0	0	20	0.74
623942--624067	32	3.9	32	71	3	83	37	15	15	31	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
629947--630195	51	4.8	50	79	9	234	26	12	12	48	1.76
629947--630195	104	2.4	106	82	6	278	26	12	12	48	1.76
630583--630640	14	3.7	14	72	24	53	48	24	6	20	1.74
630576--630645	34	2.1	34	97	0	131	44	22	7	25	1.78
630784--630812	15	1.9	15	100	0	58	41	0	3	55	1.17
630902--630930	14	2.1	14	100	0	58	20	0	27	51	1.47
634884--634922	2	19.5	2	100	0	78	51	0	0	48	1.00
644038--644117	30	2.7	28	81	9	81	33	15	7	43	1.74
648746--648771	10	2.6	10	100	0	52	30	46	15	7	1.74
653001--653025	6	4.2	6	100	0	50	52	16	16	16	1.76
665913--665950	19	2.0	19	85	10	51	47	7	7	36	1.62
666332--666387	24	2.3	24	76	14	62	23	10	1	64	1.35
671621--671672	25	2.2	25	86	6	72	19	7	3	69	1.29
679976--680023	21	2.2	21	85	3	60	37	25	12	25	1.91
681948--682095	60	2.5	61	81	6	178	34	20	4	41	1.71
681948--682125	60	3.0	60	82	4	173	33	22	3	39	1.73
684456--684554	42	2.4	41	84	6	119	19	15	23	42	1.88
684528--684648	39	3.0	39	77	14	120	23	16	17	42	1.88
686993--687027	16	2.2	16	90	10	54	42	2	2	51	1.31
693740--693799	21	2.9	21	87	0	84	51	13	33	1	1.51
693760--693799	12	3.6	12	74	19	50	52	12	32	2	1.52
694118--694408	44	6.7	44	77	1	235	28	20	20	31	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
694123--694408	88	3.3	86	79	3	259	28	19	19	31	1.97
694480--694561	42	1.9	43	85	2	112	24	26	14	34	1.94
699734--699776	20	2.2	20	87	8	61	74	2	4	18	1.10
699829--699870	17	2.4	17	88	4	57	71	0	7	21	1.09
700737--701317	200	2.9	201	85	3	726	26	20	19	33	1.97
701368--701601	86	2.7	86	86	3	312	22	23	23	31	1.98
702980--703504	68	7.7	68	88	0	773	31	16	24	28	1.96
703464--703756	81	3.6	80	88	1	406	36	10	22	30	1.89
706348--706380	2	16.5	2	100	0	66	51	0	0	48	1.00
708510--708634	57	2.2	57	87	4	173	41	9	15	33	1.79
708812--709268	68	6.7	68	89	2	677	32	16	23	27	1.96
708814--709268	204	2.2	204	91	1	752	32	16	23	27	1.96
709227--709595	81	4.5	81	86	0	486	34	11	23	31	1.90
710052--710093	20	2.0	21	86	9	59	33	2	35	28	1.70
724360--724678	111	2.9	111	88	1	444	27	16	24	31	1.97
731988--732026	19	2.1	19	100	0	78	5	15	5	74	1.17
737714--737878	90	1.8	90	96	1	296	45	6	10	37	1.64
746933--746997	22	3.0	22	88	0	94	27	29	13	29	1.95
747712--747770	15	4.0	14	80	14	57	37	8	1	52	1.42
747915--747976	15	4.1	15	97	0	115	19	12	25	41	1.87
749001--749043	21	2.0	21	95	0	77	37	16	4	41	1.69
770695--770721	11	2.5	11	100	0	54	55	0	0	44	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
772413--772478	29	2.3	28	92	5	105	42	10	13	33	1.79
776868--777008	29	4.8	29	91	0	228	42	11	13	32	1.80
777596--777822	119	1.9	118	90	9	363	24	12	13	48	1.77
778061--778147	37	2.4	37	88	3	131	40	5	6	47	1.54
779481--779507	12	2.2	12	100	0	54	48	14	0	37	1.45
781363--781407	22	2.1	22	83	4	56	28	26	24	20	1.99
785171--785201	16	1.9	16	100	0	62	25	19	9	45	1.81
786476--786539	21	3.0	21	81	4	83	23	23	28	25	2.00
788797--788822	2	13.0	2	100	0	52	50	0	0	50	1.00
791277--791325	25	2.0	25	100	0	98	26	8	8	57	1.56

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20