genome.fa.s7819.2.7.7.80.10.50.1000.16.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: VEPZ01007819.1 Hibiscus syriacus cultivar Beakdansim tig00110156_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3855360

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

This is table  16  of  17  ( 2007 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)
3413905--3413985	36	2.2	36	100	0	162	44	4	23	27	1.74
3419047--3419160	60	1.9	60	83	7	151	34	19	16	29	1.94
3420997--3421048	23	2.3	23	86	3	70	30	19	21	28	1.97
3423332--3423370	19	2.1	19	90	4	62	48	7	2	41	1.45
3423957--3424001	21	2.2	20	84	11	56	44	13	6	35	1.70
3423957--3424001	20	2.2	21	84	11	58	44	13	6	35	1.70
3428379--3428420	21	2.0	21	90	0	66	23	9	28	38	1.86
3429261--3429285	2	12.5	2	100	0	50	52	0	0	48	1.00
3429708--3429744	2	18.5	2	100	0	74	48	0	0	51	1.00
3430140--3430208	35	2.0	35	91	0	111	49	20	15	14	1.80
3431096--3431177	22	4.0	21	76	7	71	52	2	1	43	1.22
3431405--3431467	23	2.8	23	90	7	94	33	33	9	23	1.87
3447189--3447323	60	2.2	60	81	5	157	32	22	5	38	1.79
3447474--3447533	30	2.0	30	93	6	104	33	6	16	43	1.74
3447624--3447704	21	4.1	21	72	19	84	20	37	28	13	1.91
3447652--3447681	15	2.0	15	100	0	60	26	33	26	13	1.93
3447631--3447702	36	2.0	36	91	0	117	22	34	27	15	1.94
3447737--3447779	21	2.0	21	95	0	77	16	44	25	13	1.85
3447815--3447857	21	2.0	21	95	0	77	23	20	27	27	1.99
3448140--3448209	34	2.1	32	86	5	95	32	14	31	21	1.93
3449069--3449116	19	2.5	20	82	3	62	52	6	12	29	1.63
3450192--3450238	22	2.1	22	92	0	76	57	8	2	31	1.41
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3450397--3450456	30	2.0	30	93	6	104	33	6	16	43	1.74
3450546--3450626	21	4.1	21	71	20	84	20	38	27	13	1.90
3450573--3450602	15	2.0	15	100	0	60	26	33	26	13	1.93
3450659--3450701	21	2.0	21	100	0	86	13	44	27	13	1.83
3450737--3450779	21	2.0	21	95	0	77	23	20	27	27	1.99
3450807--3450846	20	1.9	21	85	10	55	37	37	10	15	1.80
3455046--3455110	28	2.4	26	75	9	67	44	9	3	43	1.51
3455049--3455104	28	2.0	28	82	3	69	44	7	3	44	1.48
3455211--3455250	17	2.3	17	82	4	53	35	15	12	37	1.85
3455454--3455510	30	1.9	30	85	7	80	40	10	8	40	1.71
3456147--3456192	21	2.1	22	84	4	58	60	2	2	34	1.21
3460190--3460277	30	3.0	30	85	5	99	44	9	5	40	1.60
3460190--3460266	30	2.7	28	86	6	100	42	9	6	41	1.62
3476517--3476596	30	2.6	29	76	9	88	42	5	6	46	1.51
3476744--3476776	13	2.5	13	100	0	66	21	9	48	21	1.77
3476811--3476880	35	2.0	35	86	10	99	45	2	0	51	1.16
3481306--3481356	21	2.5	22	81	9	63	60	3	3	31	1.33
3481640--3481690	21	2.5	22	81	9	63	60	3	3	31	1.33
3481982--3482032	21	2.5	22	81	9	63	60	3	3	31	1.33
3481068--3482086	333	3.0	343	94	4	1884	44	10	7	37	1.67
3487166--3487225	30	2.0	30	93	0	102	28	31	11	28	1.92
3501403--3501627	113	2.0	113	100	0	450	37	19	9	33	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3501869--3501965	46	2.1	46	98	0	185	26	15	9	48	1.75
3509476--3509516	18	2.3	18	95	0	73	19	48	21	9	1.77
3509498--3509557	8	7.5	8	78	21	56	16	38	23	21	1.93
3509449--3509524	13	5.5	13	79	14	80	17	46	21	15	1.84
3509463--3509524	31	2.0	31	93	0	106	17	46	20	14	1.83
3509511--3509558	10	5.6	9	85	14	50	18	35	22	22	1.96
3510834--3510869	18	2.0	18	88	0	54	52	0	16	30	1.44
3512033--3512102	12	5.8	12	78	6	70	15	14	18	51	1.77
3511996--3512106	48	2.3	48	85	3	134	19	15	17	47	1.82
3511996--3512106	24	4.6	24	76	2	107	19	15	17	47	1.82
3512039--3512090	17	2.8	18	72	21	54	15	15	19	50	1.79
3516487--3516527	20	2.0	21	90	4	66	65	4	4	24	1.32
3525526--3525568	16	2.7	16	74	0	50	25	2	6	65	1.30
3525633--3525684	22	2.4	22	75	12	52	32	0	13	53	1.40
3536193--3536249	29	2.0	29	82	6	71	45	8	8	36	1.66
3539666--3539713	22	2.2	21	82	10	53	47	6	10	35	1.63
3539960--3539993	2	17.0	2	100	0	68	50	0	0	50	1.00
3543428--3543469	17	2.3	18	84	8	50	21	2	0	76	0.90
3546171--3546200	13	2.2	14	94	5	53	20	3	6	70	1.25
3547477--3547514	3	12.7	3	100	0	76	34	0	65	0	0.93
3548700--3548724	12	2.1	12	100	0	50	0	40	28	32	1.57
3550694--3550797	44	2.4	44	95	0	181	35	9	28	25	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3559773--3559823	19	2.6	20	90	3	77	43	23	17	15	1.88
3559773--3559967	20	9.6	20	75	9	90	40	21	21	16	1.91
3560792--3560868	6	13.5	6	98	1	126	0	16	53	29	1.44
3560958--3561033	20	3.8	20	92	0	134	14	27	21	36	1.92
3561890--3561963	24	3.0	24	78	2	67	13	24	16	45	1.83
3565224--3565271	23	2.1	23	88	0	69	27	14	16	41	1.87
3566149--3566193	6	7.5	6	92	0	54	28	40	4	26	1.75
3568906--3569029	62	2.0	62	98	0	239	41	25	11	21	1.87
3570700--3570801	48	2.1	48	98	0	195	49	4	10	35	1.59
3575308--3575341	16	2.1	16	94	0	59	32	26	8	32	1.87
3575726--3575824	48	2.1	48	96	3	182	47	5	10	37	1.59
3579939--3579966	13	2.2	13	100	0	56	28	0	35	35	1.58
3582279--3582439	60	2.7	60	94	0	268	34	18	18	29	1.94
3585182--3585244	32	2.0	32	93	0	108	31	26	7	33	1.85
3589227--3589278	16	3.2	16	89	5	77	48	0	0	51	1.00
3591516--3591572	23	2.6	21	82	15	71	70	0	0	29	0.88
3591516--3591570	20	2.7	22	86	13	75	69	0	0	30	0.89
3591535--3591577	20	2.2	20	87	8	61	69	0	0	30	0.88
3591943--3592780	106	7.9	106	94	0	1390	22	17	25	34	1.96
3598333--3598389	23	2.6	21	82	15	71	70	0	0	29	0.88
3598333--3598387	20	2.7	22	86	13	75	69	0	0	30	0.89
3598352--3598394	20	2.2	20	87	8	61	69	0	0	30	0.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3601252--3601747	243	2.0	243	89	1	755	40	10	18	30	1.85
3602396--3602423	12	2.3	12	100	0	56	17	0	7	75	1.03
3603939--3604019	41	2.0	41	82	4	101	35	19	16	28	1.93
3604658--3604685	14	2.0	14	100	0	56	7	28	42	21	1.79
3604719--3604776	29	2.0	29	89	0	89	24	25	36	13	1.92
3607606--3607645	2	20.0	2	100	0	80	50	0	0	50	1.00
3610620--3610710	31	2.9	31	81	3	110	15	15	10	58	1.64
3610627--3610710	32	2.7	32	83	1	107	15	16	9	58	1.62
3611492--3611537	6	7.7	6	95	0	83	0	54	0	45	0.99
3613823--3613892	24	3.0	24	89	4	99	38	7	1	52	1.38
3614714--3614760	2	23.5	2	100	0	94	48	0	0	51	1.00
3618737--3618786	15	3.4	15	80	5	66	42	2	6	50	1.38
3618990--3619026	15	2.5	15	95	0	65	8	70	16	5	1.30
3624755--3624813	31	1.9	31	92	0	100	42	10	6	40	1.65
3625164--3625287	60	2.0	61	92	1	205	34	11	8	45	1.71
3625320--3625389	3	23.0	3	85	2	86	38	0	1	60	1.06
3625320--3625398	18	4.2	18	78	15	81	40	0	1	58	1.06
3625880--3625924	10	4.5	10	80	0	54	48	24	26	0	1.51
3626858--3626899	18	2.4	18	80	15	52	35	9	4	50	1.56
3634747--3635008	93	2.8	93	95	1	463	29	13	21	35	1.92
3634771--3634915	45	3.2	45	61	16	107	31	12	20	35	1.90
3637980--3638470	113	4.3	113	86	4	670	38	16	17	28	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3638391--3638563	77	2.3	73	87	6	233	38	16	15	29	1.90
3637980--3638470	230	2.2	228	84	5	721	38	16	17	28	1.91
3638389--3638541	77	2.0	77	92	2	254	37	18	13	30	1.90
3638474--3638733	112	2.3	112	93	1	441	37	15	18	29	1.91
3638170--3638726	299	1.8	304	86	6	819	38	15	17	28	1.91
3639142--3639932	76	10.5	76	96	0	1367	22	20	21	35	1.96
3640058--3640136	3	26.0	3	87	2	104	37	0	1	60	1.05
3640058--3640145	18	5.2	16	81	11	81	39	0	1	59	1.05
3640626--3640670	10	4.5	10	80	0	54	48	24	26	0	1.51
3643920--3643951	12	2.5	13	90	10	57	0	40	0	59	0.97

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