genome.fa.s3112.2.7.7.80.10.50.1000.4.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: VEPZ01003112.1 Hibiscus syriacus cultivar Beakdansim tig00006507_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  642031

Tables:   1   2   3   4   5   

This is table  4  of  5  ( 491 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)
488676--488733	30	1.9	30	96	0	107	20	44	20	13	1.85
491510--491563	2	27.0	2	100	0	108	50	0	0	50	1.00
491647--491687	2	21.0	2	95	5	75	51	0	0	48	1.00
493845--493949	31	3.4	31	83	10	133	29	34	25	10	1.89
495611--495663	24	2.2	24	93	0	88	58	11	11	18	1.62
497308--497371	28	2.3	28	100	0	128	28	3	17	51	1.60
500898--500955	20	2.7	20	81	10	62	32	18	20	27	1.97
505231--505288	20	2.7	20	81	10	62	32	18	20	27	1.97
508810--508894	32	2.7	31	82	7	109	27	31	30	10	1.90
509029--509063	12	2.9	12	91	0	61	57	11	17	14	1.66
513867--513913	24	2.0	24	95	0	85	53	0	14	31	1.42
517054--517183	66	2.0	66	84	0	170	38	20	21	19	1.94
519743--520105	194	1.9	194	82	5	455	39	13	15	31	1.86
521377--521829	200	2.3	200	86	2	617	38	13	13	34	1.84
521983--522396	108	3.7	108	69	11	273	33	14	13	37	1.86
522016--522485	226	2.1	226	88	1	692	33	14	13	38	1.86
524043--524110	3	22.0	3	91	5	109	35	0	0	64	0.94
525449--525507	3	20.3	3	75	13	52	27	3	1	67	1.16
525438--525499	29	2.2	28	81	16	76	29	4	3	62	1.31
525449--525507	29	2.1	28	87	9	86	27	3	1	67	1.16
527823--527864	7	6.0	7	81	8	50	14	16	14	54	1.71
527823--527864	15	3.0	14	83	10	50	14	16	14	54	1.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
527924--527983	27	2.3	27	85	2	86	21	13	6	58	1.58
527923--527950	12	2.3	12	100	0	56	25	14	7	53	1.66
532183--532390	114	1.8	114	96	0	389	31	17	20	30	1.96
534928--534982	22	2.5	22	87	0	83	34	14	14	36	1.87
535390--536388	113	8.8	113	88	2	1292	37	14	20	27	1.91
536626--536693	3	22.0	3	94	5	118	33	0	0	66	0.92
538050--538108	3	20.3	3	75	13	52	27	3	1	67	1.16
538039--538100	29	2.2	28	81	16	76	29	4	3	62	1.31
538050--538108	29	2.1	28	87	9	86	27	3	1	67	1.16
539433--539532	32	3.1	32	83	0	119	24	13	27	36	1.92
539548--539644	32	3.0	32	93	0	158	29	19	20	29	1.97
539703--539826	56	2.1	57	82	5	142	14	17	35	32	1.90
540165--540221	27	2.1	27	93	0	96	50	7	0	42	1.29
543754--543866	3	37.7	3	94	0	199	33	2	0	63	1.08
543865--543909	20	2.3	19	84	3	54	62	2	0	35	1.08
557972--558755	83	9.5	83	96	0	1387	27	13	22	36	1.92
559472--561045	113	14.0	113	98	0	2983	37	14	18	29	1.90
561364--561514	3	51.7	3	92	5	256	34	1	0	64	1.02
561513--561566	19	2.9	19	86	2	65	66	1	0	31	1.02
568174--568227	20	2.7	19	75	8	63	33	31	18	16	1.93
568212--568309	21	4.7	21	71	15	78	36	21	21	20	1.95
568277--568810	20	26.5	20	74	9	239	34	23	18	22	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
568338--568549	41	5.2	41	88	1	311	37	23	18	20	1.94
568357--568574	121	1.8	119	90	4	348	37	23	18	20	1.94
568621--568673	21	2.5	21	78	0	61	20	24	18	35	1.95
569655--569708	24	2.2	24	93	0	90	20	18	20	40	1.91
571604--571691	20	4.4	21	85	8	103	36	22	20	20	1.95
571614--571690	40	1.9	41	89	2	120	36	19	22	22	1.95
571697--571803	19	5.8	19	81	12	134	45	15	21	16	1.85
571664--571803	34	3.9	35	78	13	144	43	16	22	17	1.87
571664--571803	71	1.9	73	88	2	212	43	16	22	17	1.87
571812--571896	33	2.5	33	90	1	125	14	23	17	44	1.85
572009--572045	14	2.6	14	86	0	56	48	21	0	29	1.50
573404--573481	21	3.6	22	71	10	63	20	20	35	23	1.96
573401--573508	42	2.6	41	75	7	110	23	19	36	21	1.95
573970--574056	20	4.3	20	92	0	138	39	21	18	20	1.93
574100--574137	19	2.0	19	89	0	58	7	13	28	50	1.69
574141--574186	19	2.4	19	88	0	65	8	17	21	52	1.71
574303--574682	94	4.1	94	94	1	638	47	19	11	21	1.80
576387--576457	20	3.6	19	88	5	97	43	21	21	14	1.87
576378--576485	20	5.8	19	73	14	91	46	19	20	13	1.84
576488--576610	33	3.7	33	92	0	201	9	20	22	47	1.79
576516--576658	19	7.9	19	73	17	117	10	20	20	48	1.78
576535--576591	14	3.7	14	72	20	51	8	22	22	45	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
576576--576658	41	2.0	41	90	2	132	10	20	18	50	1.76
576583--576673	20	4.6	20	81	9	105	12	16	19	51	1.75
577230--577423	20	9.6	20	81	7	239	18	19	26	36	1.94
577230--577423	41	4.8	40	84	5	239	18	19	26	36	1.94
577227--577446	41	5.4	39	80	8	228	20	18	25	35	1.95
577273--577483	61	3.5	61	82	6	216	18	18	25	36	1.94
577432--577484	20	2.7	20	91	5	81	13	18	24	43	1.86
577229--577484	41	6.3	41	80	10	215	18	18	25	37	1.94
577227--577484	101	2.6	101	87	7	364	18	18	25	36	1.94
577452--577545	42	2.3	42	76	9	95	21	21	22	35	1.96
577534--577587	20	2.7	19	75	8	63	16	18	31	33	1.93
579161--579194	3	11.3	3	100	0	68	67	0	0	32	0.91
588270--588350	26	3.0	26	67	15	65	37	4	18	39	1.72
588362--588451	29	3.1	28	73	17	76	35	4	16	43	1.68
592007--592076	23	3.0	23	89	0	95	27	27	22	22	1.99
592096--592413	103	3.1	103	96	0	582	35	23	13	27	1.92
593591--593636	21	2.2	21	84	7	58	17	21	26	34	1.95
597574--597641	23	3.0	23	88	0	73	27	25	23	23	2.00
597660--597980	103	3.1	103	97	0	597	36	23	13	26	1.92
604133--604319	29	6.6	30	75	11	153	33	5	20	40	1.76
607247--607293	7	6.7	7	82	0	58	17	0	34	48	1.47
607248--607293	21	2.2	21	100	0	92	17	0	32	50	1.47
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
607277--607351	28	2.6	28	93	2	123	25	0	25	49	1.51
610491--610551	11	5.4	11	76	7	59	32	22	21	22	1.98
610500--610543	12	3.8	12	81	6	63	36	22	20	20	1.95
610491--610551	23	2.7	23	97	0	113	32	22	21	22	1.98
610564--610595	16	2.0	16	93	0	55	12	15	25	46	1.81
610829--610858	8	3.9	8	91	8	53	60	0	0	40	0.97
613623--613674	20	2.6	20	96	0	95	38	26	13	21	1.90
613730--613923	20	9.6	20	76	8	76	35	25	19	19	1.95
613726--613923	40	5.0	39	81	4	200	35	26	19	19	1.95
613730--613922	60	3.2	60	83	0	251	35	25	19	19	1.95
614304--614374	33	2.2	33	92	0	115	11	22	18	47	1.80
614495--614565	33	2.2	33	92	0	115	43	23	22	9	1.83
614561--614658	19	5.7	19	68	22	72	10	23	22	43	1.83
614566--614680	33	3.5	33	92	0	203	9	23	20	46	1.80
614583--614672	14	5.7	14	72	23	72	8	24	23	43	1.82
616378--616941	93	6.1	93	98	0	1098	22	12	18	46	1.83
616985--617113	19	7.3	19	75	17	125	45	28	17	8	1.77
617021--617113	33	2.8	32	91	4	150	46	27	18	7	1.76
616985--617113	52	2.5	52	74	14	140	45	28	17	8	1.77
617109--617243	19	7.6	19	74	16	119	11	18	23	45	1.82
617131--617187	14	3.7	14	77	20	60	10	21	22	45	1.82
617114--617206	33	2.8	33	93	0	159	11	19	21	47	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
619167--619202	14	2.6	14	95	0	63	33	0	22	44	1.53
619309--619410	19	5.6	19	84	13	151	44	17	23	14	1.86
619439--619745	19	17.4	19	80	16	376	14	20	18	46	1.83
619439--619678	71	3.4	71	86	11	373	14	20	17	47	1.83
619401--619745	142	2.5	137	90	5	516	14	20	18	46	1.84
619439--619717	52	5.2	52	93	4	388	14	21	17	46	1.83
622025--622049	12	2.1	12	100	0	50	0	28	0	72	0.86
622223--622269	24	2.0	24	87	8	69	38	21	14	25	1.92
622950--623318	20	18.5	20	86	4	458	20	18	26	34	1.96
623742--623905	84	2.0	83	91	1	265	27	15	10	46	1.79

Tables:   1   2   3   4   5