genome.fa.s1711.2.7.7.80.10.50.1000.11.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: VEPZ01001711.1 Hibiscus syriacus cultivar Beakdansim tig00003454_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  4148933

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   

This is table  11  of  13  ( 1546 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)
3462631--3462780	31	4.6	33	75	17	118	3	18	0	78	0.90
3475594--3475629	3	12.0	3	93	0	63	63	0	2	33	1.08
3478641--3478669	14	2.1	14	100	0	58	20	31	34	13	1.92
3478743--3478794	2	26.0	2	100	0	104	50	0	0	50	1.00
3487788--3488013	40	5.7	40	67	8	129	26	21	16	34	1.95
3487783--3488094	80	3.9	80	85	2	362	27	22	15	35	1.94
3490904--3491161	74	3.3	79	79	7	240	27	22	14	35	1.93
3491462--3491850	79	4.9	80	80	2	385	26	22	14	35	1.93
3491714--3491839	39	3.2	39	67	12	105	28	23	15	31	1.96
3495268--3495324	26	2.2	26	84	6	71	47	7	7	38	1.58
3495284--3495389	35	3.3	33	80	10	105	47	2	7	42	1.46
3495320--3495387	30	2.2	32	85	12	90	47	0	8	44	1.34
3495353--3495432	23	3.4	22	74	16	61	43	0	6	50	1.27
3495352--3495432	25	3.4	25	75	13	80	43	0	6	50	1.27
3497133--3497171	20	2.0	20	100	0	78	41	10	12	35	1.77
3499066--3499112	21	2.2	21	96	0	85	19	17	31	31	1.94
3501134--3501186	22	2.5	21	81	6	63	33	15	22	28	1.94
3501505--3501745	54	4.4	54	82	4	250	34	12	19	34	1.88
3501505--3501742	109	2.2	110	81	3	264	34	11	19	34	1.88
3501961--3502047	46	1.9	45	92	2	147	45	12	18	22	1.83
3506417--3506459	18	2.4	18	88	7	61	72	4	4	18	1.20
3514394--3514427	16	2.0	18	88	11	54	70	0	0	29	0.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3514478--3514517	18	2.2	18	90	0	62	72	5	5	17	1.21
3515067--3515093	12	2.2	12	100	0	54	51	7	0	40	1.30
3515017--3515208	72	2.6	77	85	5	243	55	14	0	29	1.43
3515017--3515243	76	3.1	75	83	6	232	56	12	1	29	1.45
3516148--3516192	3	15.0	3	100	0	90	66	0	0	33	0.92
3516427--3516718	137	2.1	137	79	3	311	27	12	29	30	1.93
3517427--3517536	16	7.1	15	73	16	84	1	20	0	77	0.86
3517425--3517547	33	3.6	36	78	16	113	2	20	0	77	0.89
3517425--3517543	56	2.1	53	81	14	141	2	20	0	77	0.89
3517446--3517530	7	11.9	7	78	13	84	2	18	0	78	0.85
3517422--3517518	46	2.0	48	86	9	137	2	19	0	78	0.85
3517425--3517543	11	10.7	10	73	18	76	2	20	0	77	0.89
3530290--3530325	3	12.0	3	87	0	54	61	0	5	33	1.19
3533649--3533692	2	22.0	2	100	0	88	50	0	0	50	1.00
3541946--3542212	80	3.4	79	87	3	342	27	22	14	35	1.93
3542039--3542212	40	4.4	39	71	11	120	28	24	12	33	1.92
3541908--3542212	160	1.9	157	82	7	382	27	22	13	35	1.92
3545059--3545343	80	3.6	79	77	7	240	27	21	14	36	1.92
3545644--3546032	79	4.9	80	84	3	414	26	23	14	35	1.93
3545903--3546021	39	3.1	39	69	13	118	28	23	15	32	1.95
3549517--3549545	2	14.5	2	100	0	58	51	0	0	48	1.00
3551254--3551293	20	2.0	20	95	0	71	37	10	17	35	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3553169--3553203	2	17.5	2	100	0	70	51	0	0	48	1.00
3554429--3554755	176	1.9	175	90	1	521	32	19	11	37	1.87
3557145--3557304	54	2.9	55	85	4	223	36	11	17	34	1.85
3557602--3557688	46	1.9	45	88	2	129	44	11	19	24	1.83
3559454--3559482	2	14.5	2	100	0	58	51	0	0	48	1.00
3562338--3562610	55	5.0	55	82	6	313	33	13	17	35	1.89
3562338--3562543	109	1.9	110	89	3	326	34	13	15	36	1.86
3562339--3562603	109	2.4	109	83	5	313	33	13	16	35	1.88
3566072--3566129	22	2.8	21	82	15	75	17	20	36	25	1.94
3566580--3566686	44	2.4	44	92	1	169	32	22	5	39	1.77
3575471--3575523	22	2.4	22	90	9	90	15	45	22	16	1.85
3576223--3576317	45	2.1	45	94	0	163	31	21	8	38	1.83
3576390--3576526	59	2.3	58	75	2	139	29	24	18	28	1.98
3589138--3589176	15	2.6	15	100	0	78	51	0	10	38	1.36
3589095--3589157	29	2.2	29	85	0	81	50	1	17	30	1.55
3592513--3592561	20	2.5	20	80	9	57	28	10	8	53	1.63
3593320--3593345	13	2.0	13	100	0	52	7	15	30	46	1.74
3597184--3597249	22	3.0	22	90	0	105	9	28	30	31	1.88
3597195--3597257	22	3.0	20	88	6	65	11	31	28	28	1.91
3597610--3597739	30	4.3	30	94	0	215	40	20	15	23	1.90
3599042--3599097	21	2.7	21	100	0	112	55	3	8	32	1.48
3605668--3605713	19	2.4	20	89	10	78	23	17	13	45	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3611414--3611800	192	2.0	191	82	5	469	42	10	9	37	1.72
3611803--3611831	14	2.0	15	93	6	51	41	20	6	31	1.79
3613593--3613683	41	2.1	43	92	6	150	17	13	12	57	1.66
3613709--3613748	19	2.1	19	90	9	64	65	15	15	5	1.44
3614511--3614570	22	2.5	24	78	15	70	53	0	15	31	1.42
3616655--3616706	21	2.5	20	81	9	59	28	19	28	23	1.98
3616671--3616729	21	2.8	21	82	5	66	37	22	22	18	1.94
3629967--3630017	21	2.4	21	93	0	84	39	27	19	13	1.90
3632035--3632173	71	2.0	71	98	0	269	40	16	13	29	1.87
3632653--3633353	54	13.2	53	84	4	758	38	15	12	32	1.85
3632653--3633353	108	6.6	108	85	4	868	38	15	12	32	1.85
3632653--3633353	162	4.4	162	84	3	866	38	15	12	32	1.85
3638080--3638185	53	2.0	52	85	5	142	37	18	11	32	1.87
3641933--3642053	53	2.3	54	91	1	199	39	20	9	29	1.85
3644036--3644115	36	2.2	36	97	0	151	30	20	1	48	1.57
3646930--3647474	54	10.1	54	83	1	619	38	15	12	33	1.85
3646976--3647469	267	1.9	267	85	0	700	37	15	12	34	1.85
3650494--3650538	18	2.4	18	92	3	72	24	15	13	46	1.82
3651802--3651842	20	2.0	20	90	0	64	36	21	9	31	1.86
3654950--3655104	77	2.0	78	98	1	303	44	16	16	21	1.86
3661923--3661960	8	4.8	8	90	0	58	0	34	0	65	0.93
3665776--3665814	13	3.0	13	88	0	60	30	15	23	30	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3669920--3669983	7	8.9	7	72	17	51	65	0	6	28	1.16
3672713--3672829	5	22.8	5	73	8	83	70	1	5	23	1.17
3672713--3672844	20	6.8	20	68	16	57	69	1	5	23	1.17
3672767--3672842	10	7.1	11	79	11	70	75	1	2	21	1.00
3672769--3672842	21	3.5	21	83	1	85	75	1	2	20	1.00
3673787--3673835	12	4.0	12	84	10	55	18	8	2	71	1.21
3673797--3673833	13	2.9	13	92	4	58	21	8	0	70	1.13
3676403--3676431	11	2.6	11	100	0	58	6	20	6	65	1.40
3676798--3676848	21	2.4	21	74	6	50	33	29	17	19	1.95
3676870--3676915	21	2.2	21	92	0	74	36	19	21	21	1.95
3677073--3677626	278	2.0	276	98	0	1081	25	15	23	35	1.94
3686420--3686477	20	2.8	21	71	10	57	31	25	18	24	1.98
3693320--3693423	42	2.5	41	80	9	120	20	25	21	33	1.97
3701675--3702269	45	13.2	45	87	2	847	23	20	14	42	1.88
3707263--3708056	45	18.2	45	78	11	559	24	20	14	40	1.90
3707263--3707517	88	2.9	89	86	3	345	23	20	14	41	1.89
3707263--3708056	135	6.1	134	79	11	619	24	20	14	40	1.90
3707497--3707584	21	4.0	21	74	21	83	23	21	17	37	1.94
3707452--3707584	66	2.0	66	89	2	205	23	21	16	39	1.92
3707409--3707631	111	2.0	109	86	5	306	23	20	15	39	1.91
3707518--3708056	90	6.0	90	89	1	794	24	20	14	40	1.90
3707364--3707676	156	2.0	154	86	3	432	24	20	15	39	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3709988--3710046	22	2.7	22	100	0	118	37	15	20	27	1.92
3710392--3710949	54	10.3	54	86	0	722	33	20	17	28	1.95
3712556--3712585	14	2.1	14	93	0	51	36	10	13	40	1.78
3716167--3716208	18	2.3	18	87	0	57	35	9	28	26	1.88
3716177--3716212	18	2.0	18	94	0	63	36	11	30	22	1.89
3716577--3716990	54	7.7	54	86	3	550	35	20	16	27	1.94
3726302--3726327	12	2.2	12	100	0	52	42	0	19	38	1.51
3733382--3733461	39	2.1	39	83	4	99	33	21	3	41	1.71
3733382--3733473	19	4.8	19	82	5	78	35	21	3	39	1.70
3750855--3750885	13	2.4	13	88	0	53	77	6	0	16	0.97

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13