genome.fa.s9610.2.7.7.80.10.50.1000.18.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: VEPZ01009610.1 Hibiscus syriacus cultivar Beakdansim tig00116996_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3811333

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

This is table  18  of  18  ( 2160 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)
3617800--3617864	26	2.5	27	74	23	68	20	20	44	15	1.86
3617795--3617852	13	4.3	13	88	4	71	20	20	43	15	1.88
3620043--3620168	24	5.2	24	87	7	107	42	19	16	22	1.89
3620050--3620164	48	2.4	47	88	5	160	40	19	17	22	1.91
3621270--3621305	18	2.0	18	88	0	54	30	16	0	52	1.44
3622601--3622632	7	4.4	7	92	7	55	25	28	34	12	1.92
3622643--3622688	18	2.6	18	100	0	92	8	21	52	17	1.71
3622614--3622679	26	2.6	27	77	22	79	16	24	43	15	1.86
3622602--3622661	8	8.5	8	75	25	64	20	25	40	15	1.90
3622609--3622666	13	4.3	13	93	4	89	17	24	43	15	1.87
3623542--3623583	16	2.6	16	92	0	66	4	11	16	66	1.40
3624447--3624513	34	1.9	34	82	14	84	44	17	13	23	1.85
3634258--3634296	21	1.9	20	89	5	60	38	20	10	30	1.86
3637711--3637757	21	2.3	21	85	3	60	42	27	12	17	1.85
3642698--3643274	287	2.0	286	96	0	1073	33	15	18	31	1.93
3654495--3654557	23	2.7	23	92	0	99	38	20	4	36	1.74
3654980--3655045	34	1.9	34	96	0	123	16	16	18	48	1.82
3655317--3655353	18	2.1	18	89	0	56	51	10	5	32	1.60
3655771--3655843	23	3.2	23	80	7	78	41	20	2	35	1.67
3656188--3656253	25	2.6	25	75	0	78	43	12	9	34	1.73
3656623--3657103	183	2.6	183	95	0	856	33	16	14	34	1.89
3657762--3659124	198	6.9	198	96	0	2482	31	15	15	37	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3657762--3659124	592	2.3	594	97	0	2559	31	15	15	37	1.90
3659238--3659286	19	2.6	19	93	0	80	57	10	2	30	1.43
3661067--3661131	33	2.0	32	87	3	94	21	49	0	29	1.50
3661164--3661228	21	3.1	21	79	0	76	16	30	13	38	1.88
3663431--3663473	20	2.3	18	85	14	61	20	16	11	51	1.75
3663404--3663869	178	2.6	176	87	5	643	27	16	14	42	1.87
3663933--3664638	225	3.1	227	94	2	1248	39	7	8	44	1.62
3665004--3665038	2	17.5	2	87	0	52	54	0	0	45	0.99
3665227--3665262	2	18.0	2	100	0	72	50	0	0	50	1.00
3679384--3679455	17	4.2	17	80	5	74	36	13	9	40	1.78
3679384--3679455	34	2.1	35	86	2	101	36	13	9	40	1.78
3694556--3694609	19	2.8	19	82	0	72	20	33	18	27	1.96
3697214--3697277	29	2.2	30	83	5	78	31	4	10	53	1.57
3699288--3699327	22	1.9	22	90	10	66	22	22	22	32	1.98
3705865--3705901	17	2.2	17	100	0	74	35	10	35	18	1.86
3708107--3708161	28	1.9	29	88	3	85	20	5	12	61	1.50
3710200--3710874	208	3.2	210	96	1	1232	22	17	25	34	1.96
3710200--3710874	105	6.5	105	97	1	1232	22	17	25	34	1.96
3711088--3711125	9	4.4	9	90	3	53	0	0	7	92	0.40
3720744--3720906	83	2.0	81	95	4	292	22	28	16	32	1.96
3722211--3722242	13	2.4	14	90	10	50	78	0	6	15	0.95
3722202--3722281	23	3.5	22	71	20	58	71	1	5	22	1.13
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3724259--3724316	29	2.0	29	96	0	107	17	5	15	62	1.50
3726687--3726725	19	2.1	19	85	9	53	17	7	35	38	1.79
3727445--3727535	23	4.0	23	85	5	114	19	24	24	31	1.98
3728932--3729016	40	2.1	41	82	2	100	32	18	9	38	1.83
3729096--3729284	42	4.6	41	82	3	175	32	18	16	31	1.94
3729055--3729261	42	5.0	42	79	7	163	32	17	15	33	1.92
3732259--3732317	31	1.9	31	89	0	91	33	16	18	30	1.94
3732289--3732502	43	5.0	43	87	0	284	41	19	17	21	1.91
3737359--3737388	2	15.0	2	100	0	60	50	0	0	50	1.00
3739758--3739813	29	1.9	29	96	0	103	26	14	10	48	1.76
3744342--3744405	29	2.2	29	88	0	92	23	14	14	48	1.79
3746374--3746401	2	14.0	2	100	0	56	50	0	0	50	1.00
3746681--3746712	14	2.3	14	94	0	55	28	3	0	68	1.04
3748326--3748365	20	1.9	21	90	10	64	37	2	10	50	1.50
3755187--3755232	23	2.0	23	100	0	92	34	21	4	39	1.73
3759530--3759700	63	2.7	63	95	0	297	38	13	7	41	1.72
3759679--3759784	54	2.0	54	92	0	176	46	11	3	38	1.58
3760579--3760645	33	2.0	33	91	0	107	44	14	7	32	1.74
3760640--3760681	21	2.0	21	100	0	84	47	9	14	28	1.75
3763080--3763135	27	2.1	26	78	15	60	30	14	14	41	1.85
3763702--3763760	23	2.6	23	88	0	82	45	6	11	35	1.67
3763674--3763836	87	1.9	87	92	2	274	41	11	12	34	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3764161--3764199	15	2.6	15	95	0	69	7	23	20	48	1.75
3766972--3767331	200	1.8	198	88	1	524	30	15	13	39	1.87
3767086--3767567	251	1.9	251	86	3	686	31	16	13	38	1.88
3768831--3768894	12	5.3	12	78	0	65	18	31	9	40	1.83
3768855--3768894	18	2.2	18	86	0	53	22	30	2	45	1.66
3770369--3771310	201	4.7	200	92	1	1519	31	16	14	36	1.89
3773373--3773438	33	2.0	33	90	0	105	22	45	0	31	1.53
3773475--3773515	21	2.0	21	90	0	64	19	24	12	43	1.85
3778506--3778585	30	2.7	30	82	0	88	58	12	15	13	1.63
3778534--3778613	30	2.8	28	81	9	72	58	7	15	18	1.59
3781221--3781339	31	3.8	31	90	0	175	31	15	19	32	1.93
3781924--3781963	21	1.9	21	94	0	71	22	22	27	27	1.99
3782801--3782856	3	18.7	3	85	14	80	64	0	1	33	1.04
3782801--3782856	23	2.7	21	84	15	80	64	0	1	33	1.04
3784071--3784118	23	2.1	23	88	0	69	35	12	18	33	1.89
3784158--3784814	329	2.0	327	97	1	1244	38	11	8	42	1.70
3784857--3784928	23	3.2	23	88	2	92	41	19	4	34	1.71
3785328--3785414	39	2.2	39	95	0	156	17	13	20	48	1.81
3785672--3785708	18	2.1	18	89	0	56	51	10	5	32	1.60
3786094--3786143	25	2.0	24	92	3	82	40	20	8	32	1.81
3786418--3786480	23	2.7	23	90	0	90	38	17	6	38	1.75
3786822--3786887	25	2.6	25	80	0	87	42	13	9	34	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3789340--3790041	183	3.9	183	94	2	1222	33	16	14	35	1.89
3791439--3791483	3	15.0	3	85	0	63	26	33	2	37	1.69
3791443--3791531	12	7.4	12	81	0	79	21	33	7	37	1.82
3791443--3791534	18	5.1	18	74	0	67	20	33	7	38	1.81
3791443--3791534	6	15.3	6	76	0	58	20	33	7	38	1.81
3792983--3794126	197	5.9	197	95	4	2060	30	16	15	36	1.91
3792983--3794126	583	2.0	580	95	3	2070	30	16	15	36	1.91
3796074--3796139	33	2.0	33	93	0	114	22	50	0	27	1.50
3798446--3798493	20	2.3	20	80	13	62	18	16	10	54	1.70
3798615--3798660	20	2.3	20	89	10	76	17	17	10	54	1.70
3801371--3801526	41	3.8	41	82	6	165	33	25	20	20	1.97
3801392--3801506	20	5.7	20	84	6	133	31	26	19	22	1.98
3801369--3801451	21	4.0	22	75	10	84	39	24	20	15	1.91
3803471--3803508	20	1.9	20	88	0	58	39	21	21	18	1.93
3803527--3803610	19	4.7	19	87	10	124	15	21	16	46	1.84
3803527--3803623	38	2.8	33	82	14	131	15	22	16	45	1.85
3803750--3803786	14	2.6	14	86	0	56	48	21	0	29	1.50
3805657--3805710	20	2.7	20	85	0	72	37	24	25	12	1.91
3805697--3805809	30	3.4	34	85	13	146	47	21	17	13	1.81
3805697--3805817	66	1.9	63	86	5	170	48	21	16	13	1.80
3805755--3805814	17	3.3	18	69	17	61	53	23	15	8	1.68
3805821--3805951	19	7.3	19	70	18	84	12	19	22	44	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3805838--3805896	14	3.9	14	76	20	64	10	16	23	49	1.77
3805821--3805912	33	2.8	33	98	0	175	11	18	21	47	1.80
3805897--3805951	20	2.8	19	83	8	65	16	23	23	36	1.94
3806433--3806477	18	2.5	18	88	0	72	13	15	44	26	1.83
3807792--3807850	20	3.0	20	87	0	73	42	22	18	16	1.89
3808112--3808155	22	2.0	22	95	0	79	18	15	45	20	1.85
3808344--3808457	20	5.7	20	84	6	140	23	19	27	29	1.98
3808324--3808459	41	3.3	41	83	6	177	23	18	25	32	1.97
3808324--3808479	41	3.8	41	81	3	136	22	19	25	32	1.97
3811048--3811088	2	21.0	2	85	5	57	43	0	4	51	1.23

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

The End!