genome.fa.s4507.2.7.7.80.10.50.1000.4.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: VEPZ01004507.1 Hibiscus syriacus cultivar Beakdansim tig00009942_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1776135

Tables:   1   2   3   4   5   6   7   8   

This is table  4  of  8  ( 904 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)
624117--624151	17	2.1	16	89	5	52	25	0	5	68	1.11
625952--626215	127	2.1	119	79	14	255	19	24	23	32	1.98
626518--626567	13	3.9	12	79	10	55	20	6	12	62	1.50
630581--630620	21	1.9	21	89	0	62	37	30	2	30	1.71
631621--631684	29	2.1	31	82	5	78	37	17	1	43	1.58
631753--631808	15	3.9	14	73	13	60	58	0	0	41	0.98
631746--631844	23	4.4	23	72	20	86	55	2	1	41	1.18
634038--634071	14	2.4	14	95	5	59	32	0	2	64	1.08
634416--634804	195	2.0	190	95	4	699	31	6	10	51	1.63
634899--634948	2	25.0	2	100	0	100	50	0	0	50	1.00
635816--635853	18	2.1	18	85	9	51	42	2	5	50	1.39
636427--636480	12	4.6	12	90	4	83	9	12	48	29	1.73
636427--636480	23	2.3	24	90	3	83	9	12	48	29	1.73
636479--636542	24	2.6	24	85	7	85	46	0	0	53	1.00
638526--638583	31	1.9	31	85	3	82	51	8	1	37	1.43
639341--639398	21	2.7	22	75	17	68	46	17	6	29	1.74
640187--640225	17	2.4	16	83	8	51	43	2	5	48	1.38
642847--642876	2	15.0	2	100	0	60	50	0	0	50	1.00
642977--643011	17	2.1	17	100	0	70	34	0	11	54	1.37
643126--643203	41	1.9	41	84	5	104	16	37	19	26	1.93
643391--643582	25	7.7	24	86	8	192	20	42	18	18	1.89
643384--643582	50	4.0	48	83	8	224	19	44	18	18	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
643384--643582	75	2.7	75	87	3	269	19	44	18	18	1.87
648347--648395	22	2.2	22	85	7	64	63	4	2	30	1.24
648373--648408	16	2.3	15	90	4	54	52	5	0	41	1.24
648797--648837	13	3.0	13	89	10	64	43	0	0	56	0.99
648797--648846	14	3.6	14	86	10	75	46	0	0	54	1.00
648917--648960	22	2.0	22	81	4	52	59	0	2	38	1.10
653089--653176	18	4.9	18	85	0	113	19	20	34	26	1.96
662235--662303	31	2.2	31	85	10	88	34	17	4	43	1.69
662562--662625	27	2.6	25	85	9	78	42	4	0	53	1.22
662561--662625	25	2.5	27	82	9	82	43	4	0	52	1.22
664703--664743	19	2.2	19	86	8	57	73	0	2	24	0.96
664695--664747	26	2.0	27	88	3	81	73	0	3	22	0.99
665218--665299	33	2.5	33	84	4	103	31	13	17	37	1.88
666422--666622	110	1.8	110	94	0	357	22	18	23	34	1.96
670596--670636	19	2.2	19	86	8	57	73	0	2	24	0.96
671108--671189	33	2.5	33	90	4	121	29	14	19	36	1.92
671243--671273	3	10.7	3	93	6	55	70	0	0	29	0.87
671242--671296	15	3.6	16	81	13	55	67	0	0	32	0.91
672419--672460	19	2.2	19	91	0	66	45	7	4	42	1.52
673980--674026	20	2.3	20	96	0	85	25	14	23	36	1.93
679666--679708	14	2.9	15	74	19	54	44	6	18	30	1.76
679718--679751	14	2.4	14	90	0	50	35	14	17	32	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
679995--680057	23	2.7	23	82	5	63	49	0	1	49	1.10
680017--680057	12	3.4	12	81	18	50	46	0	0	53	1.00
680033--680085	20	2.7	20	75	16	56	49	1	0	49	1.12
680158--680201	22	2.0	23	86	4	63	54	0	0	45	0.99
680386--680503	42	2.8	42	88	1	164	47	19	16	16	1.83
680809--680843	3	11.7	3	87	0	52	0	40	0	60	0.97
680809--680843	12	2.9	12	95	0	61	0	40	0	60	0.97
683541--683588	14	3.3	14	80	11	60	45	0	0	54	0.99
684251--684284	15	2.4	14	90	5	50	38	0	0	61	0.96
688562--688658	21	4.6	21	89	2	133	45	18	16	19	1.86
688562--688670	21	5.2	21	86	6	125	44	17	16	21	1.86
688917--688956	7	5.9	7	88	2	55	15	20	15	50	1.79
692264--692512	125	2.0	125	87	4	360	32	16	25	25	1.96
693784--693916	37	3.6	37	87	3	196	36	22	16	24	1.94
693780--693942	73	2.2	73	81	9	197	36	20	18	24	1.95
694323--694585	54	4.9	54	88	3	377	33	17	26	21	1.96
694378--695493	55	20.9	54	83	9	896	31	15	24	27	1.96
694589--695488	110	8.4	110	84	7	1065	31	15	23	29	1.95
694589--695431	165	5.3	164	85	6	1058	31	15	23	29	1.95
694982--695233	45	5.2	45	79	15	245	31	15	23	29	1.95
695184--695453	51	5.0	56	82	8	294	30	17	24	28	1.97
698553--698642	37	2.4	39	79	5	96	42	3	0	54	1.17
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
698630--698720	27	3.5	24	77	16	83	40	2	0	57	1.11
698647--698718	29	2.5	30	86	8	98	43	1	0	55	1.08
698649--698744	27	3.7	25	80	12	88	39	3	0	57	1.15
698680--698751	24	3.0	24	83	4	74	36	5	0	58	1.22
698648--698762	54	2.1	54	79	9	128	40	3	0	54	1.23
698713--698765	23	2.2	23	86	6	70	35	5	1	56	1.34
698796--698863	27	2.5	26	75	11	66	50	1	4	44	1.31
700176--700210	19	1.9	19	88	11	56	60	8	0	31	1.27
701040--701085	24	1.9	24	100	0	92	39	23	13	23	1.90
709779--709886	2	57.5	2	75	18	72	47	1	0	50	1.18
709776--709886	14	7.7	15	72	13	81	47	1	0	49	1.18
712597--712648	19	2.7	19	84	0	68	30	25	23	21	1.99
718444--718566	44	2.8	45	77	13	128	29	25	19	26	1.99
720102--720154	27	2.0	27	84	0	70	9	41	13	35	1.76
720803--720836	16	2.1	16	100	0	68	35	0	47	17	1.48
726930--726974	22	2.0	22	95	0	81	37	13	17	31	1.89
731060--731124	20	3.3	21	72	22	68	18	7	0	73	1.06
731096--731136	17	2.3	18	87	4	57	24	2	2	70	1.11
731998--732077	41	2.0	41	87	0	115	28	17	3	50	1.63
732079--732122	20	2.2	21	84	8	56	11	6	4	77	1.11
733747--733771	10	2.5	10	100	0	50	92	0	0	8	0.40
736773--737210	200	2.2	202	81	4	519	34	19	19	26	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
737048--737714	169	4.0	168	82	2	721	35	19	19	26	1.95
738475--738547	22	3.3	21	83	12	85	46	1	8	43	1.42
738478--738554	23	3.3	24	85	8	97	48	1	7	42	1.40
738494--738567	24	2.8	27	82	17	86	50	0	5	44	1.25
738583--738608	12	2.2	12	100	0	52	50	0	0	50	1.00
738558--738664	56	1.9	55	83	5	135	42	2	6	48	1.43
738676--738738	10	7.1	9	83	16	71	19	4	0	76	0.96
739653--739680	2	14.0	2	100	0	56	50	0	0	50	1.00
740084--740122	21	1.9	20	89	5	60	33	0	0	66	0.92
741810--741848	21	1.9	20	89	5	60	66	0	0	33	0.92
747214--747256	21	2.0	22	86	4	61	30	25	23	20	1.99
748870--748914	22	2.0	23	83	12	58	62	4	0	33	1.15
760497--760537	15	2.7	15	92	0	64	29	0	2	68	1.03
765341--765378	12	3.2	12	100	0	76	7	15	0	76	1.01
767383--767420	18	2.1	18	90	0	58	23	21	28	26	1.99
778501--778541	21	2.0	21	100	0	82	29	14	7	48	1.71
778531--778607	33	2.4	32	84	4	109	33	9	12	44	1.75
779774--779874	42	2.5	41	81	3	123	31	25	13	28	1.94
781521--781571	21	2.4	22	77	9	61	33	3	33	29	1.76
785814--785924	59	1.9	58	90	7	181	39	3	13	43	1.62
786148--786197	24	2.1	24	82	17	61	54	2	0	44	1.11
786621--786774	2	78.5	2	72	17	101	42	4	3	49	1.41
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
788590--788620	2	15.5	2	100	0	62	48	0	0	51	1.00
788624--788682	28	2.1	28	90	0	91	37	11	23	27	1.90
788903--788959	23	2.5	23	85	2	80	24	17	24	33	1.96
792255--792507	20	12.6	20	74	6	127	32	25	12	30	1.92
792318--792506	101	1.9	100	82	5	238	31	23	11	32	1.91
794334--794385	21	2.5	21	90	0	77	23	21	25	30	1.99
795027--795151	31	4.0	31	90	2	189	38	22	18	20	1.93
795862--795890	11	2.6	11	100	0	58	51	17	6	24	1.69
798134--798174	12	3.4	12	86	0	55	56	24	2	17	1.53
798133--798167	6	5.8	6	86	0	52	60	20	2	17	1.49

Tables:   1   2   3   4   5   6   7   8