genome.fa.s7717.2.7.7.80.10.50.1000.3.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: VEPZ01007717.1 Hibiscus syriacus cultivar Beakdansim tig00109948_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  900945

Tables:   1   2   3   4   5   

This is table  3  of  5  ( 486 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)
465093--465168	29	2.6	29	79	10	100	22	31	7	38	1.83
466058--466104	14	3.7	14	71	26	50	44	0	4	51	1.21
466057--466106	23	2.1	24	96	3	93	48	0	4	48	1.20
466355--466393	11	3.5	11	86	6	51	53	2	2	41	1.28
466355--466387	12	2.8	12	90	9	50	57	0	3	39	1.14
469735--469848	6	18.7	6	81	2	111	7	2	42	46	1.46
470552--470667	16	7.4	14	74	21	54	48	1	0	50	1.11
470574--470645	21	3.1	23	88	11	80	52	0	0	47	1.00
470584--470670	21	4.1	21	81	12	81	51	1	0	47	1.08
470605--470672	6	12.3	6	79	17	85	50	1	0	48	1.10
470564--470672	33	3.2	33	81	13	116	50	1	0	47	1.11
470605--470672	27	2.5	28	90	9	106	50	1	0	48	1.10
470684--470749	31	2.2	30	86	10	98	51	4	3	40	1.38
470691--470737	24	1.9	25	82	4	60	53	6	2	38	1.39
470727--470794	21	3.2	21	76	14	68	47	4	4	44	1.43
470689--470868	88	2.0	89	83	7	224	48	5	5	41	1.47
470808--470849	22	2.0	22	90	9	70	47	7	7	38	1.58
470837--470889	21	2.5	21	84	0	70	47	3	7	41	1.50
470936--471033	20	4.8	22	72	17	70	41	6	7	44	1.56
470942--470995	24	2.2	25	80	9	67	46	5	7	40	1.55
470950--471026	37	2.1	37	82	4	93	41	3	7	46	1.51
470932--471059	61	2.1	62	81	10	147	41	6	8	43	1.60
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
471208--471247	20	2.0	20	90	0	62	40	10	5	45	1.60
474499--474841	2	174.0	2	65	20	109	44	4	2	47	1.39
474545--474675	29	4.5	29	70	14	90	45	4	1	48	1.32
474546--474685	41	3.1	46	67	26	111	44	5	1	49	1.33
474593--474628	15	2.4	15	95	0	63	41	2	5	50	1.40
474502--474634	66	2.0	69	81	14	161	45	3	3	48	1.36
474536--474726	87	2.2	87	88	2	276	43	5	2	48	1.38
474682--474829	13	11.3	13	68	14	65	44	5	4	45	1.45
478296--478720	45	9.4	45	85	3	527	29	20	9	40	1.84
497313--497548	45	5.2	45	88	4	334	30	19	9	40	1.84
497968--498021	28	2.0	28	88	3	83	33	7	25	33	1.84
498072--498241	65	2.6	63	78	11	159	43	12	12	30	1.81
498202--498277	36	2.1	36	85	7	102	44	13	11	30	1.79
498137--498454	100	3.2	100	79	7	340	41	11	15	31	1.82
498616--499025	73	5.6	71	81	7	412	40	9	20	30	1.84
498602--499025	145	2.9	145	85	3	541	40	9	20	29	1.83
498626--499031	35	11.1	38	69	16	173	40	9	19	30	1.83
499664--499731	26	2.7	26	83	2	84	51	1	13	33	1.50
500669--500759	38	2.4	39	90	1	148	29	28	19	21	1.98
501700--501764	32	2.0	32	96	0	121	29	26	9	35	1.87
507150--507412	85	3.1	84	79	8	273	31	18	18	31	1.95
507432--507491	2	30.5	2	88	3	86	48	0	0	51	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
509842--509928	37	2.3	37	83	13	115	1	34	8	56	1.36
513770--513825	15	3.7	15	90	2	76	8	21	10	58	1.58
519056--519111	22	2.6	22	88	8	80	5	14	0	80	0.88
521271--521309	20	2.0	20	84	0	51	46	12	15	25	1.81
523614--523673	30	2.0	30	96	0	111	55	6	6	31	1.52
524984--525012	3	9.7	3	100	0	58	68	31	0	0	0.89
527139--527214	30	2.5	31	82	4	100	42	9	9	39	1.69
528178--528279	51	2.0	51	100	0	204	37	17	5	39	1.74
536658--536736	31	2.5	31	83	0	95	32	7	17	41	1.78
538187--538232	22	2.1	22	100	0	92	30	17	4	47	1.67
540205--540235	3	10.3	3	100	0	62	67	0	32	0	0.91
542297--542342	22	2.0	23	87	12	67	58	4	0	36	1.18
542383--542423	2	21.0	2	85	14	59	48	2	0	48	1.14
542383--542423	17	2.4	17	91	4	64	48	2	0	48	1.14
544169--544200	13	2.5	13	100	0	64	28	0	46	25	1.53
544475--544854	193	2.0	192	93	1	645	29	13	5	51	1.64
546975--547039	30	2.2	30	97	0	121	32	24	30	12	1.92
559892--559921	7	4.3	7	100	0	60	26	0	0	73	0.84
561748--561951	21	9.9	21	70	12	154	20	19	24	36	1.95
561761--561979	42	5.3	42	92	2	347	20	18	22	38	1.93
562597--562646	6	8.5	6	86	4	57	6	10	48	36	1.61
562729--562816	21	4.2	21	73	15	67	31	17	23	27	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
563122--563160	16	2.4	16	95	0	69	25	5	17	51	1.66
563456--563503	21	2.3	21	85	7	62	62	2	8	27	1.35
566320--566551	36	6.2	35	82	9	234	47	4	3	44	1.41
566532--566581	20	2.5	20	83	6	66	44	0	4	52	1.20
566652--566677	13	2.0	13	100	0	52	15	0	7	76	0.99
567986--568015	13	2.2	14	94	5	53	23	0	0	76	0.78
570054--570098	19	2.4	19	92	3	74	11	13	8	66	1.44
573487--574005	84	6.2	84	81	4	600	30	25	20	24	1.99
573487--574005	168	3.1	168	88	1	715	30	25	20	24	1.99
574634--574865	36	6.2	35	80	9	207	47	4	3	44	1.41
574634--574865	72	3.1	71	78	14	236	47	4	3	44	1.41
574846--574895	20	2.5	20	90	6	75	46	0	4	50	1.20
574969--574994	13	2.0	13	100	0	52	15	0	7	76	0.99
576303--576332	13	2.2	14	94	5	53	23	0	0	76	0.78
580559--580615	22	2.6	23	94	5	100	40	14	22	22	1.90
581206--581430	45	5.0	45	86	2	258	40	11	20	26	1.87
583659--583714	22	2.5	22	77	8	60	67	1	7	23	1.24
583719--583770	14	3.8	13	80	14	61	69	1	1	26	1.10
583783--583865	33	2.5	34	86	9	109	66	3	6	24	1.31
585921--586488	43	13.1	42	79	9	538	31	21	20	26	1.98
586103--586171	20	3.3	20	67	21	61	28	21	24	24	1.99
587015--587069	25	2.2	25	90	0	83	41	9	10	38	1.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
589161--589198	19	2.1	19	85	9	53	15	21	13	50	1.78
591751--591790	19	2.1	19	100	0	80	15	25	10	50	1.74
591751--591796	19	2.6	18	93	6	76	19	23	13	43	1.86
592664--592697	12	2.8	12	86	0	50	85	0	2	11	0.71
597013--597125	54	2.1	54	88	0	163	23	26	15	33	1.95
598169--598215	24	2.0	24	95	0	85	17	17	29	36	1.92
600084--600222	72	1.9	71	88	7	210	33	20	21	25	1.97
602170--602203	12	2.8	12	86	4	50	67	0	8	23	1.18
602182--602234	21	2.6	21	87	3	72	62	7	11	18	1.52
605609--605654	14	3.3	14	84	6	58	67	2	4	26	1.21
605671--605734	33	1.9	33	93	6	112	67	3	7	21	1.31
605692--605738	20	2.3	21	75	10	53	70	2	6	21	1.20
608315--608360	22	2.0	23	83	8	58	36	8	4	50	1.53
608492--608594	28	3.7	26	71	14	71	51	6	7	33	1.57
608540--608610	29	2.4	29	81	6	81	49	5	5	39	1.50
609623--609665	2	21.5	2	100	0	86	51	0	0	48	1.00
634186--634257	28	2.7	28	91	6	114	29	9	16	44	1.80
637955--638022	27	2.6	26	88	9	102	32	10	16	41	1.82
643794--643855	3	20.0	3	80	6	70	40	0	0	59	0.97
651561--651599	19	2.1	19	100	0	78	15	20	5	58	1.55
656408--656479	34	2.1	34	89	0	108	25	11	18	45	1.81
656559--656630	19	3.8	19	84	0	99	44	8	19	27	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
656540--656614	38	2.0	37	82	7	89	48	8	17	26	1.75
659195--659266	24	3.0	24	97	0	135	54	23	4	18	1.61
659196--659265	13	5.6	13	70	14	58	55	24	2	17	1.55
659900--659932	16	2.1	16	88	11	50	6	45	24	24	1.75
660239--660307	19	3.7	19	76	3	68	26	31	11	30	1.91
660777--660815	8	5.0	8	90	3	62	23	10	12	53	1.69
666455--666496	2	21.0	2	100	0	84	50	0	0	50	1.00
666613--666652	20	2.0	20	85	0	53	25	12	17	45	1.83
671611--671926	158	2.0	158	100	0	632	35	26	17	20	1.95
675762--675817	23	2.4	23	100	0	112	33	25	21	19	1.97

Tables:   1   2   3   4   5