genome.fa.s8027.2.7.7.80.10.50.1000.18.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: VEPZ01008027.1 Hibiscus syriacus cultivar Beakdansim tig00110503_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  7662336

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31   32   
          33   34   35   36   37   38   

This is table  18  of  38  ( 4505 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)
3827240--3827279	21	1.9	21	84	0	53	17	22	30	30	1.97
3828647--3828786	31	4.5	31	92	3	228	49	18	12	20	1.79
3828973--3829098	59	2.2	58	95	1	225	40	8	15	35	1.78
3829125--3829174	20	2.6	20	87	6	68	58	0	0	42	0.98
3830753--3830830	38	2.1	37	90	4	122	55	8	10	25	1.63
3831051--3831080	12	2.6	12	94	5	53	26	6	0	66	1.16
3833327--3833517	96	2.0	97	87	1	276	39	12	16	31	1.85
3834558--3834610	27	1.9	28	92	3	90	49	1	11	37	1.50
3845232--3845264	11	3.0	11	95	0	57	24	0	9	66	1.20
3848643--3848691	18	2.8	18	93	3	82	40	10	20	28	1.85
3849465--3849511	24	2.0	24	95	0	85	23	21	25	29	1.99
3850806--3850858	20	2.7	20	85	5	72	35	15	18	30	1.92
3851061--3851107	20	2.3	20	89	7	69	44	12	2	40	1.54
3851253--3851279	2	13.5	2	100	0	54	51	0	0	48	1.00
3852903--3852976	37	2.0	37	86	5	105	50	1	2	45	1.24
3853441--3853466	6	4.3	6	100	0	52	84	0	0	15	0.62
3854274--3854328	12	4.6	12	83	0	65	12	14	47	25	1.80
3854327--3854428	32	3.2	32	78	12	102	47	0	0	52	1.00
3861437--3861523	33	2.7	33	89	3	124	18	22	8	50	1.73
3862009--3862053	23	1.9	24	90	4	74	42	4	0	53	1.21
3862453--3862484	14	2.2	14	94	5	55	78	0	0	21	0.76
3863903--3863961	28	2.1	29	83	3	75	30	3	23	42	1.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3865205--3865261	23	2.5	23	97	0	105	28	26	28	17	1.98
3866401--3866458	20	2.7	20	86	10	71	27	18	18	34	1.95
3866511--3866562	19	2.7	19	96	0	95	23	30	15	30	1.95
3868732--3868873	69	2.0	71	87	2	207	35	19	19	26	1.95
3870759--3870812	20	2.7	20	85	5	65	31	11	12	44	1.78
3876501--3876547	20	2.3	20	92	0	76	34	23	19	23	1.97
3876541--3876727	20	9.3	20	84	6	211	41	24	13	20	1.88
3876517--3876688	60	2.9	61	81	8	210	42	23	13	20	1.87
3876880--3876937	22	2.6	22	97	0	107	17	44	20	17	1.86
3879373--3879466	21	4.5	21	84	0	116	21	35	19	24	1.96
3879368--3879489	42	2.9	41	84	7	140	19	34	19	26	1.96
3880904--3880959	28	2.0	28	85	0	76	32	0	21	46	1.52
3880904--3880942	14	2.8	14	100	0	78	30	0	23	46	1.53
3880853--3881009	81	2.0	77	88	5	233	29	0	20	49	1.53
3881115--3881171	20	2.8	20	83	0	78	42	26	14	17	1.87
3883708--3883761	24	2.2	24	93	0	90	40	20	18	20	1.91
3883887--3883920	12	2.8	12	90	0	50	14	0	29	55	1.40
3884732--3884819	20	4.4	20	84	5	97	29	12	23	34	1.92
3884732--3884799	19	3.4	19	89	6	91	32	10	23	33	1.88
3884766--3885133	20	18.4	20	80	10	339	19	14	24	41	1.89
3884747--3885158	140	2.9	140	94	2	704	19	14	24	41	1.89
3885794--3885884	42	2.2	40	83	11	105	51	2	1	45	1.20
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3888902--3888936	2	17.5	2	100	0	70	51	0	0	48	1.00
3889135--3889266	24	5.5	24	85	3	167	40	18	14	26	1.89
3889131--3889283	48	3.2	49	77	5	143	44	17	13	24	1.84
3893144--3893196	21	2.5	21	78	0	61	20	24	18	35	1.95
3893186--3893277	20	4.6	20	76	2	103	39	19	20	20	1.93
3893454--3893515	22	3.0	22	75	18	78	27	38	14	19	1.90
3893885--3893931	20	2.3	20	92	0	76	12	14	23	48	1.78
3893894--3893933	20	2.0	20	100	0	80	10	15	20	55	1.68
3893898--3893941	20	2.2	20	87	0	61	13	13	20	52	1.74
3895818--3895938	20	6.3	20	82	11	155	38	19	20	22	1.94
3895821--3895921	34	2.7	38	86	8	138	40	19	20	18	1.92
3896006--3896141	20	7.4	20	73	21	84	14	19	21	44	1.87
3896028--3896121	33	2.8	34	78	3	118	12	18	23	45	1.83
3896627--3896668	21	2.2	19	87	12	59	21	35	19	23	1.96
3896625--3896723	21	4.8	19	69	15	54	22	34	21	22	1.97
3896650--3896732	42	2.0	42	83	4	105	21	37	20	20	1.95
3898087--3898122	14	2.6	14	90	0	54	30	0	22	47	1.52
3898264--3898317	14	3.5	14	73	22	54	11	24	20	44	1.83
3898262--3898337	33	2.3	34	90	2	118	13	25	21	40	1.89
3898309--3898402	20	4.7	20	86	2	136	18	21	24	36	1.95
3900402--3900461	24	2.5	24	83	0	84	38	18	18	25	1.93
3901880--3901940	19	3.2	19	82	13	79	13	18	31	37	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3901880--3901940	9	6.3	10	83	11	74	13	18	31	37	1.88
3901880--3901940	30	2.1	28	87	6	86	13	18	31	37	1.88
3901943--3901973	13	2.4	13	94	0	53	19	45	16	19	1.86
3901953--3901992	17	2.3	18	86	4	55	20	45	20	15	1.86
3901975--3902020	7	6.7	7	85	14	69	15	32	28	23	1.95
3902020--3902086	29	2.3	29	84	5	82	22	8	26	41	1.83
3902048--3902144	29	3.4	29	69	7	90	31	7	20	40	1.80
3909196--3909247	9	5.3	10	82	13	72	13	19	30	36	1.90
3909254--3909304	18	2.9	17	91	5	84	17	47	19	15	1.83
3909282--3909310	13	2.3	13	94	5	51	17	44	24	13	1.85
3909325--3909449	29	4.3	29	72	6	92	28	8	21	41	1.81
3911339--3911427	20	4.4	20	91	0	142	21	16	19	42	1.89
3911412--3911532	21	5.8	21	99	0	233	19	23	19	38	1.93
3912725--3912805	16	5.4	16	73	20	77	60	1	1	37	1.13
3912747--3912828	8	10.8	8	72	12	57	60	3	1	34	1.22
3913972--3914006	17	2.1	16	89	5	52	28	0	0	71	0.86
3913979--3914041	31	2.0	32	87	9	94	41	1	0	57	1.08
3915695--3915740	14	3.4	14	79	11	51	39	4	4	52	1.41
3919862--3919911	24	2.1	24	100	0	100	28	28	12	32	1.92
3920726--3920762	13	2.8	13	91	0	65	16	48	21	13	1.80
3923271--3923361	24	3.8	24	85	2	121	25	17	19	37	1.94
3923271--3923361	47	1.9	48	88	2	139	25	17	19	37	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3925487--3925563	9	7.9	9	71	16	55	12	19	31	36	1.90
3925487--3925563	30	2.6	30	97	0	145	12	19	31	36	1.90
3925572--3925614	13	3.3	13	93	0	77	16	46	20	16	1.84
3928151--3928241	24	3.8	24	85	2	121	25	17	19	37	1.94
3928151--3928241	47	1.9	48	88	2	139	25	17	19	37	1.94
3929917--3930033	61	1.9	60	81	8	139	29	23	6	40	1.80
3931484--3931795	154	2.0	155	93	1	529	44	9	15	29	1.78
3938186--3938300	42	2.7	42	91	0	185	16	18	16	48	1.81
3938457--3938507	21	2.3	23	86	10	70	50	0	0	49	1.00
3938457--3938541	23	3.2	25	74	20	75	49	0	1	49	1.08
3938562--3938656	29	3.2	28	78	19	88	45	0	2	52	1.12
3938798--3938837	20	2.0	20	85	9	55	60	0	0	40	0.97
3939019--3939103	15	5.7	15	80	2	73	35	15	7	42	1.74
3939034--3939099	15	4.4	15	86	0	96	39	16	7	36	1.77
3939019--3939099	30	2.7	30	90	1	119	37	16	7	39	1.76
3939850--3939898	20	2.5	20	100	0	98	30	14	20	34	1.92
3951133--3951211	29	2.7	29	75	9	72	26	10	7	55	1.60
3957630--3957729	51	1.9	53	85	6	141	30	3	35	32	1.73
3958243--3958276	2	17.0	2	100	0	68	50	0	0	50	1.00
3964648--3964716	30	2.3	30	82	5	86	37	7	7	47	1.59
3964728--3964825	30	3.3	29	76	9	110	37	8	15	38	1.77
3964728--3964825	28	3.4	28	81	8	115	37	8	15	38	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3965362--3965425	26	2.4	27	80	12	87	68	0	10	20	1.19
3965449--3965614	4	41.0	4	69	20	53	69	1	1	26	1.08
3965457--3965675	42	5.1	42	70	17	130	67	3	2	26	1.18
3965449--3965537	9	10.4	9	77	12	64	73	2	0	24	0.95
3965471--3965561	9	10.3	9	79	12	59	74	2	2	20	1.03
3965471--3965587	63	1.9	62	84	10	159	73	2	1	22	1.04
3966197--3966308	37	3.0	37	90	0	179	33	12	12	41	1.81
3967467--3967519	24	2.2	25	83	6	65	58	1	11	28	1.43
3969687--3969763	27	2.7	28	73	16	77	32	7	22	37	1.83
3970069--3970210	42	3.3	42	77	6	142	23	17	23	35	1.95

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31   32   
          33   34   35   36   37   38