genome.fa.s8229.2.7.7.80.10.50.1000.16.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: VEPZ01008229.1 Hibiscus syriacus cultivar Beakdansim tig00110865_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3634043

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

This is table  16  of  17  ( 2034 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)
3219068--3219299	35	6.7	34	74	18	187	45	3	6	43	1.47
3219067--3219300	68	3.4	69	76	16	241	45	3	6	44	1.47
3219048--3219262	110	1.9	113	82	12	277	44	4	7	43	1.51
3219077--3219256	73	2.6	68	80	14	206	44	3	6	45	1.48
3219067--3219300	69	3.4	68	73	13	217	45	3	6	44	1.47
3219310--3219341	17	1.9	16	93	6	55	40	3	0	56	1.15
3220064--3220117	28	2.1	23	76	23	63	14	9	25	50	1.73
3220526--3220566	19	2.1	20	90	4	66	26	0	0	73	0.84
3220723--3220752	13	2.3	13	94	0	51	33	3	0	63	1.11
3225921--3226076	84	1.9	84	94	2	280	29	27	19	23	1.98
3225614--3226069	227	2.0	227	98	0	876	30	24	20	24	1.99
3226033--3226121	45	2.0	45	86	2	126	29	25	19	25	1.98
3226077--3226562	164	3.0	164	89	1	749	29	24	21	24	1.99
3226077--3226551	84	5.8	80	76	4	383	29	24	21	24	1.99
3226559--3226588	14	2.1	14	93	0	51	40	43	6	10	1.64
3227345--3227535	35	5.4	34	74	19	169	45	4	7	42	1.51
3227291--3227546	109	2.4	106	79	14	265	42	4	8	44	1.55
3227598--3227653	18	3.3	18	76	19	57	28	5	0	66	1.14
3228865--3228905	19	2.0	20	86	9	57	21	0	0	78	0.76
3229058--3229087	13	2.3	13	94	0	51	33	3	0	63	1.11
3230035--3230085	23	2.2	23	82	0	57	45	1	0	52	1.12
3230073--3230153	19	4.3	19	72	20	64	48	1	1	49	1.17
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3230230--3230292	8	8.2	8	77	10	51	44	0	0	55	0.99
3231535--3231578	20	2.2	20	100	0	88	43	9	22	25	1.82
3234548--3234591	20	2.2	20	100	0	88	43	9	22	25	1.82
3236775--3236817	12	3.7	11	87	9	59	11	9	44	34	1.73
3236936--3236964	13	2.3	13	94	5	51	10	17	58	13	1.62
3238397--3238528	24	5.3	24	71	14	99	53	0	0	45	1.05
3238407--3238519	8	13.6	8	73	14	68	54	0	0	45	0.99
3238406--3238557	50	3.0	50	93	4	243	51	0	0	47	1.05
3238606--3238674	19	3.6	18	71	21	52	49	1	1	47	1.19
3238669--3238713	23	2.0	23	86	0	63	53	2	2	42	1.25
3240449--3240500	26	2.0	26	85	7	70	44	19	13	23	1.86
3241861--3241912	20	2.6	20	90	0	86	25	17	21	36	1.94
3242726--3242795	29	2.4	29	90	0	104	37	12	10	40	1.77
3248126--3248170	22	2.0	22	100	0	90	28	22	22	26	1.99
3248879--3248916	20	2.0	19	90	10	60	23	28	15	31	1.96
3257938--3257980	20	2.2	20	83	8	52	20	0	11	67	1.22
3258005--3258037	12	2.6	13	90	4	50	36	12	6	45	1.66
3258207--3258231	12	2.1	12	100	0	50	40	52	0	8	1.31
3259817--3259851	12	2.8	13	86	8	54	45	8	5	40	1.58
3263827--3263860	2	17.0	2	100	0	68	50	0	0	50	1.00
3264110--3264169	3	20.0	3	100	0	120	33	0	0	66	0.92
3273948--3274110	65	2.5	65	81	8	190	23	24	19	32	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3285636--3285715	29	2.8	29	98	0	151	22	3	16	57	1.55
3286432--3286464	16	2.1	16	94	0	57	6	15	21	57	1.59
3295721--3295755	14	2.4	14	90	4	52	31	0	8	60	1.27
3296617--3296673	29	2.0	29	85	0	78	38	8	8	43	1.67
3301280--3301326	15	3.3	15	77	17	64	6	36	4	53	1.46
3301305--3301441	45	3.0	45	91	0	220	8	34	7	50	1.60
3307024--3307050	12	2.2	12	100	0	54	77	0	0	22	0.76
3311337--3311382	23	2.0	23	100	0	92	39	8	26	26	1.85
3311712--3311871	65	2.5	63	87	6	223	30	24	18	26	1.98
3311843--3311891	19	2.6	19	84	9	57	24	28	20	26	1.99
3317659--3317739	24	3.5	24	70	20	75	22	24	22	30	1.99
3317660--3317762	44	2.3	44	82	9	138	22	26	21	30	1.99
3320402--3320502	45	2.2	45	87	5	141	28	20	20	29	1.98
3320472--3320520	19	2.6	19	84	9	57	24	28	20	26	1.99
3326864--3327081	103	2.1	103	92	0	373	27	12	22	36	1.91
3327088--3327207	47	2.6	47	95	1	215	23	23	23	30	1.99
3327088--3327212	23	5.3	23	78	2	133	24	22	23	30	1.99
3330345--3330432	41	2.1	41	97	0	167	47	7	14	29	1.73
3330633--3330841	42	5.0	42	79	5	199	48	6	18	26	1.71
3330817--3330900	21	4.2	20	68	20	59	53	4	15	26	1.61
3336679--3336714	15	2.4	16	90	9	58	36	0	0	63	0.94
3364342--3364386	13	3.6	13	80	17	51	6	8	24	60	1.51
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3374149--3374317	39	4.3	39	79	5	162	32	22	27	17	1.96
3374144--3374317	78	2.2	78	80	0	186	32	22	27	18	1.97
3379613--3379638	12	2.2	12	100	0	52	7	34	23	34	1.83
3382008--3382070	18	3.6	18	80	2	74	25	20	28	25	1.99
3383579--3383620	17	2.5	17	100	0	84	45	9	26	19	1.80
3383628--3383975	44	7.9	44	82	1	374	33	20	18	27	1.96
3383628--3383944	133	2.4	132	81	2	366	34	20	17	27	1.95
3383643--3384016	88	4.2	88	83	4	412	33	20	18	27	1.96
3383631--3384017	44	8.8	44	78	4	253	33	20	18	28	1.96
3384282--3384378	46	2.1	47	82	7	117	47	1	9	42	1.42
3384430--3384456	2	13.5	2	100	0	54	51	0	0	48	1.00
3384483--3384510	13	2.2	13	100	0	56	50	0	7	42	1.30
3386144--3386197	22	2.5	22	74	11	58	37	7	1	53	1.40
3387830--3388111	138	2.1	137	88	3	415	31	13	14	40	1.85
3395124--3395164	20	2.0	20	100	0	82	43	4	14	36	1.67
3401531--3401570	21	1.9	21	85	10	55	35	10	2	52	1.48
3403498--3403536	20	2.1	19	90	9	62	12	23	41	23	1.88
3414617--3414690	20	3.8	19	78	8	69	33	12	16	37	1.85
3421874--3421921	19	2.5	20	93	6	75	45	8	12	33	1.72
3424461--3424490	9	3.3	9	100	0	60	0	20	0	80	0.72
3426835--3426887	2	26.5	2	100	0	106	50	0	0	49	1.00
3438865--3438930	32	2.1	32	94	0	114	28	24	13	33	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3444492--3444532	22	1.9	22	85	5	57	63	0	17	19	1.31
3446419--3446449	3	10.0	3	93	6	53	35	0	0	64	0.94
3446419--3446457	9	4.2	10	93	6	57	35	0	0	64	0.94
3456046--3456127	26	3.4	26	69	22	79	17	21	13	47	1.81
3456011--3456276	91	2.9	91	89	3	408	21	22	10	45	1.82
3456011--3456267	137	1.9	139	91	1	428	19	22	10	46	1.81
3456011--3456276	46	5.8	46	90	1	417	21	22	10	45	1.82
3456249--3456455	79	2.6	79	89	2	319	28	22	10	38	1.87
3458110--3458209	36	2.8	36	83	4	112	38	18	11	33	1.85
3458250--3458334	36	2.3	36	82	6	91	31	20	11	36	1.88
3458339--3458551	66	3.3	65	76	7	209	27	19	14	38	1.90
3458572--3458907	134	2.6	130	81	4	370	25	32	17	24	1.97
3459095--3459148	25	2.1	26	86	10	76	35	0	1	62	1.06
3459096--3459148	9	5.5	10	82	8	58	35	0	1	62	1.06
3460251--3460312	14	4.2	14	78	11	70	17	3	4	74	1.13
3460277--3460329	19	2.7	20	91	2	81	22	1	1	73	1.03
3460250--3460312	5	12.6	5	77	12	67	17	3	4	74	1.12
3460277--3460329	10	5.4	10	79	4	63	22	1	1	73	1.03
3462208--3462248	20	2.0	20	100	0	82	46	29	9	14	1.77
3463748--3463794	6	7.8	6	92	0	58	53	0	0	46	1.00
3463757--3463825	3	21.3	3	82	8	66	59	0	0	40	0.97
3465076--3465135	21	3.1	18	78	21	59	28	1	3	66	1.17
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3465169--3465216	18	2.9	17	75	12	55	33	4	0	62	1.14
3465386--3465435	23	2.0	26	85	11	70	46	2	2	50	1.24
3473093--3473129	18	2.0	19	89	5	58	24	13	0	62	1.31
3476663--3476715	7	8.0	7	75	12	58	83	3	13	0	0.79
3476663--3476715	19	2.7	20	85	2	72	83	3	13	0	0.79
3476652--3476714	29	2.2	28	91	2	99	84	4	11	0	0.77
3477944--3478291	115	3.0	115	95	0	608	33	14	20	30	1.93
3479074--3479237	73	2.2	73	82	2	186	33	17	16	32	1.93
3479139--3479728	113	5.2	112	86	4	699	38	14	18	29	1.90
3479139--3479728	229	2.6	226	84	5	718	38	14	18	29	1.90

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