genome.fa.s7859.2.7.7.80.10.50.1000.16.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: VEPZ01007859.1 Hibiscus syriacus cultivar Beakdansim tig00110221_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3538007

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

This is table  16  of  18  ( 2075 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)
3199548--3199609	20	3.2	20	83	4	90	51	17	20	9	1.73
3199591--3199630	14	2.9	14	88	0	62	47	25	20	7	1.75
3199619--3199656	20	1.9	20	100	0	76	50	28	15	5	1.66
3199680--3199759	33	2.4	33	91	0	124	11	21	21	46	1.82
3199699--3199783	19	4.6	19	69	16	63	14	21	18	45	1.84
3200177--3200265	42	2.1	42	80	0	106	21	38	16	23	1.93
3201647--3201682	14	2.6	14	95	0	63	33	0	22	44	1.53
3201789--3201844	19	3.2	18	71	23	57	44	19	23	12	1.84
3201789--3201887	33	3.0	33	86	4	130	48	21	19	11	1.79
3201852--3201892	19	2.2	19	90	0	64	56	21	12	9	1.65
3201900--3202043	19	8.3	18	70	22	96	12	24	19	43	1.85
3201900--3202023	33	3.8	33	97	0	230	12	24	18	45	1.83
3201918--3202005	14	5.6	14	70	23	59	11	25	19	44	1.84
3201996--3202089	20	4.7	20	72	13	68	21	20	23	35	1.96
3205253--3205296	22	2.0	21	82	4	52	27	11	40	20	1.86
3205465--3205876	20	20.2	20	82	5	332	33	18	19	28	1.96
3205476--3205713	41	5.8	41	88	3	354	39	16	21	22	1.92
3205475--3205734	61	4.3	61	87	4	339	38	16	20	24	1.93
3205600--3205855	81	3.2	80	86	2	289	28	20	19	31	1.97
3205477--3205876	41	9.9	40	85	4	306	33	18	20	28	1.96
3205845--3205897	21	2.5	21	81	0	61	32	18	26	22	1.97
3206198--3206243	24	1.9	24	82	8	58	34	13	2	50	1.53
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3206426--3206463	9	4.2	9	96	0	58	44	5	0	50	1.24
3206720--3206768	24	2.0	25	84	11	66	36	14	2	46	1.56
3206843--3206962	2	61.0	2	88	6	183	49	1	1	47	1.21
3207312--3207357	24	1.9	24	82	8	58	34	13	2	50	1.53
3207432--3207627	2	99.0	2	76	15	185	48	5	1	45	1.31
3206348--3208064	569	3.0	574	83	8	2334	35	10	5	48	1.62
3207960--3208003	16	2.5	18	82	14	56	27	9	2	61	1.38
3208055--3208133	22	3.7	21	80	6	79	49	1	11	37	1.47
3208102--3208199	8	13.0	8	69	20	59	51	4	8	36	1.51
3208010--3208153	14	10.0	15	70	15	81	50	1	9	38	1.44
3208102--3208156	22	2.5	24	77	17	73	50	0	10	38	1.37
3214674--3214720	23	2.0	23	95	0	85	42	31	6	19	1.76
3216214--3216274	18	3.4	18	74	17	72	34	11	27	26	1.91
3216203--3216274	36	2.0	36	97	0	135	36	9	27	26	1.88
3219076--3219118	20	2.1	20	83	12	52	60	4	0	34	1.17
3219454--3219510	29	2.0	28	96	3	105	21	10	7	61	1.52
3230393--3230425	16	1.9	18	88	11	52	54	18	15	12	1.71
3239573--3239630	3	19.7	3	89	10	93	32	0	0	67	0.91
3240942--3240973	3	10.7	3	93	0	55	31	3	0	65	1.08
3240964--3241029	24	2.8	23	71	17	55	43	1	1	53	1.19
3252440--3252545	15	7.1	14	78	13	97	81	0	16	1	0.79
3252450--3252539	8	10.6	9	74	21	61	82	0	16	1	0.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3252456--3252543	6	15.2	6	74	14	69	82	0	15	1	0.72
3252450--3252545	10	9.0	10	81	14	95	82	0	16	1	0.73
3252490--3252541	9	5.9	9	80	13	54	84	0	15	0	0.62
3254190--3254719	113	4.6	113	78	6	519	37	15	19	27	1.92
3255182--3255235	3	17.7	3	85	11	74	37	0	0	62	0.95
3256525--3256583	3	19.7	3	96	0	109	32	1	0	66	1.02
3256589--3256637	23	2.2	23	82	7	57	48	0	2	48	1.12
3256763--3256817	20	2.7	20	77	2	56	30	1	1	65	1.13
3256867--3256912	23	1.9	25	86	8	69	50	2	0	47	1.13
3260452--3260517	25	2.6	26	85	4	89	34	9	10	45	1.70
3269115--3269174	3	20.0	3	100	0	120	33	0	0	66	0.92
3269573--3269623	2	26.0	2	84	4	68	47	3	1	47	1.32
3269637--3269839	34	5.7	36	79	15	185	43	3	5	46	1.45
3269673--3269839	34	4.9	34	82	8	198	44	4	5	45	1.45
3269839--3269883	11	3.9	11	82	8	54	15	0	4	80	0.87
3274201--3274258	25	2.3	24	71	11	53	79	8	12	0	0.94
3274207--3274246	20	2.0	21	90	5	64	80	7	12	0	0.91
3274199--3274285	32	2.6	33	83	12	115	78	9	10	2	1.06
3274208--3274265	8	7.4	8	77	12	50	79	6	13	0	0.93
3274208--3274286	14	5.9	14	73	15	51	77	7	12	2	1.08
3275868--3277138	106	12.0	106	90	2	1948	33	24	18	22	1.96
3277953--3277985	2	17.0	2	93	6	59	48	0	0	51	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3278036--3278203	34	4.9	35	81	9	179	45	4	4	45	1.43
3280591--3280644	27	2.0	28	81	3	65	31	7	5	55	1.51
3287042--3287080	8	5.0	8	87	3	53	64	0	0	35	0.94
3288336--3288360	7	3.6	7	100	0	50	48	36	0	16	1.46
3290548--3290715	21	8.0	21	84	9	193	30	23	22	24	1.99
3290548--3290742	104	1.9	104	90	2	311	31	21	22	25	1.98
3290878--3290941	6	11.5	6	88	11	93	31	53	15	0	1.43
3290878--3290927	15	3.1	15	84	15	73	34	52	14	0	1.42
3291043--3291138	39	2.5	39	98	0	183	28	19	17	34	1.95
3291478--3291535	6	10.0	6	92	1	84	1	13	51	32	1.51
3291628--3291771	21	6.9	21	77	10	127	32	22	20	23	1.98
3291621--3291806	83	2.2	82	83	7	216	31	22	20	25	1.98
3291697--3291964	21	12.9	21	75	16	152	25	22	22	29	1.99
3291754--3291964	41	5.1	41	83	10	261	23	21	22	31	1.98
3291780--3291964	83	2.2	83	97	0	343	23	21	23	31	1.98
3291780--3291976	21	9.5	21	80	14	212	22	21	24	31	1.98
3295758--3295866	56	1.9	56	83	5	139	30	24	19	25	1.98
3297266--3297402	40	3.4	40	76	15	147	43	19	17	18	1.88
3297266--3297403	20	6.9	20	81	8	115	43	19	17	19	1.88
3297653--3297690	18	2.1	18	85	9	51	18	0	0	81	0.69
3297899--3297945	20	2.3	20	85	0	67	48	19	17	14	1.81
3297908--3297960	20	2.5	20	90	9	79	50	13	20	15	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3297960--3298039	39	2.1	37	93	4	133	11	17	20	51	1.75
3297960--3298039	19	4.2	19	93	4	135	11	17	20	51	1.75
3299711--3299751	21	2.0	21	85	0	55	24	14	31	29	1.95
3299767--3299817	21	2.4	21	80	6	59	19	9	39	31	1.84
3300161--3300266	21	5.0	21	74	17	103	22	34	18	23	1.96
3300159--3300277	42	2.8	41	83	9	152	22	33	20	23	1.97
3301623--3301798	64	2.8	64	95	0	307	27	2	16	53	1.57
3301858--3301896	20	2.0	20	94	0	69	46	25	17	10	1.80
3301901--3301965	20	3.2	20	93	0	112	13	20	23	43	1.87
3302115--3302195	20	4.1	20	91	0	135	43	25	17	13	1.86
3301857--3302468	304	2.0	295	87	3	877	36	16	16	30	1.91
3302419--3302468	20	2.5	20	87	6	75	46	22	18	14	1.84
3302452--3302481	14	2.1	14	93	0	51	46	23	20	10	1.80
3302479--3302517	20	2.0	20	100	0	78	15	15	25	43	1.86
3305019--3305072	24	2.2	24	90	0	81	44	18	14	22	1.86
3305198--3305231	12	2.8	12	90	0	50	14	0	29	55	1.40
3305823--3305860	16	2.5	15	84	12	51	65	0	5	28	1.14
3306016--3306083	20	3.4	20	76	15	77	35	13	20	30	1.91
3306008--3306092	40	2.2	38	79	8	98	42	10	17	29	1.83
3306028--3306091	20	3.2	20	71	6	58	40	12	17	29	1.86
3306017--3306094	40	2.0	40	89	0	120	38	12	17	30	1.88
3306156--3306264	40	2.7	39	83	5	112	17	15	22	44	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3306177--3306267	20	4.6	20	80	0	110	14	15	23	47	1.82
3306177--3306289	40	2.8	40	84	5	131	15	16	21	46	1.84
3306501--3306561	24	2.5	24	84	7	70	59	9	0	31	1.30
3318500--3318529	8	3.9	8	91	8	53	63	0	36	0	0.95
3322159--3322199	18	2.3	18	87	4	57	51	2	0	46	1.14
3322817--3322869	3	17.7	3	100	0	106	67	0	0	32	0.91
3323008--3323038	2	16.0	2	93	6	55	51	0	0	48	1.00
3323908--3323940	16	2.1	16	94	0	57	0	42	0	57	0.98
3324613--3324819	91	2.3	88	81	2	234	32	16	18	32	1.94
3324715--3325412	262	2.6	262	81	1	806	31	15	20	31	1.94

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