genome.fa.s9582.2.7.7.80.10.50.1000.17.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: VEPZ01009582.1 Hibiscus syriacus cultivar Beakdansim tig00116959_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  4978262

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   

This is table  17  of  24  ( 2799 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)
3331087--3331117	15	2.1	14	94	5	53	54	6	0	38	1.26
3331092--3331138	16	3.0	16	84	9	53	59	10	0	29	1.31
3331179--3331260	34	2.5	34	84	9	100	48	12	0	39	1.41
3331301--3331391	44	2.0	48	85	12	129	48	10	0	40	1.38
3331372--3331460	41	2.2	40	78	8	90	46	10	1	42	1.45
3331496--3331534	16	2.3	18	86	8	55	56	5	0	38	1.22
3331844--3331909	29	2.3	29	91	0	105	22	33	30	13	1.93
3331896--3331977	32	2.6	32	90	3	121	10	31	28	29	1.91
3332071--3332130	29	2.1	29	96	0	111	18	28	28	25	1.98
3332255--3332284	2	15.0	2	100	0	60	50	0	0	50	1.00
3337582--3337717	64	2.1	64	82	4	159	27	14	13	43	1.84
3337598--3337717	64	1.9	64	84	3	161	28	14	12	45	1.81
3342481--3342569	29	3.1	28	78	10	92	46	7	6	39	1.60
3342658--3342772	30	3.8	30	76	11	108	45	10	7	36	1.68
3342834--3342873	3	13.3	3	100	0	80	32	0	0	67	0.91
3345058--3345135	33	2.4	33	91	4	122	35	17	15	30	1.91
3345669--3345729	7	8.9	7	83	16	83	27	0	0	72	0.85
3345670--3345726	4	15.2	4	82	17	70	26	0	0	73	0.83
3345670--3345726	11	5.5	11	80	19	77	26	0	0	73	0.83
3345669--3345734	10	6.7	10	79	20	77	27	1	0	71	0.95
3345677--3345735	19	3.1	19	88	11	86	25	1	0	72	0.93
3349275--3349480	110	1.9	106	83	4	259	33	20	19	26	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3349811--3350386	111	5.3	110	87	4	744	34	24	18	22	1.96
3350903--3350984	37	2.2	36	95	2	146	26	20	14	37	1.92
3350933--3351089	67	2.3	68	86	6	210	31	19	13	35	1.91
3351037--3351156	33	3.8	32	84	7	147	40	19	9	31	1.83
3351053--3351150	29	3.2	29	84	10	99	43	17	8	30	1.78
3351148--3351415	83	3.2	83	83	1	374	32	25	19	23	1.97
3351757--3351813	3	20.3	3	80	20	70	33	0	0	66	0.92
3351756--3351813	17	3.5	17	88	9	84	34	0	0	65	0.93
3351757--3351813	5	10.2	6	85	14	70	33	0	0	66	0.92
3351876--3351990	33	3.5	33	93	2	187	39	20	12	27	1.88
3352526--3352587	4	15.2	4	84	15	67	24	0	1	74	0.91
3352526--3352587	15	4.1	15	75	24	67	24	0	1	74	0.91
3352526--3352595	19	3.9	19	76	17	78	24	1	1	72	1.00
3352525--3352597	15	5.0	13	75	19	56	24	1	1	72	1.00
3355882--3355934	21	2.5	21	81	0	70	39	20	18	20	1.92
3356074--3356139	33	2.0	33	96	0	123	27	18	16	37	1.92
3356813--3356845	17	2.0	16	94	5	57	54	0	3	42	1.15
3359526--3359558	14	2.3	15	89	5	50	24	6	36	33	1.80
3361101--3361134	17	2.1	16	88	5	50	76	0	8	14	1.01
3364593--3364727	72	1.9	72	85	3	191	30	16	19	34	1.94
3371774--3371807	10	3.3	10	88	8	50	41	0	8	50	1.34
3371774--3371820	21	2.2	21	81	7	60	40	0	8	51	1.33
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3371809--3371877	25	2.6	26	77	8	61	52	7	2	37	1.44
3371487--3372234	251	3.0	250	92	3	1237	44	10	8	36	1.69
3372138--3372177	18	2.2	19	86	4	55	60	2	2	35	1.24
3373785--3373831	15	3.1	15	84	3	58	2	4	10	82	0.88
3377347--3377426	22	3.6	22	67	14	65	61	6	13	18	1.53
3383602--3383636	3	12.0	3	87	6	54	62	0	2	34	1.10
3384293--3384317	5	5.0	5	100	0	50	20	0	40	40	1.52
3384431--3384477	20	2.3	20	96	0	85	46	19	4	29	1.68
3385177--3385225	13	3.8	13	72	22	50	75	0	0	24	0.80
3385177--3385223	6	7.7	6	77	13	51	76	0	0	23	0.78
3385177--3385225	19	2.6	19	77	9	55	75	0	0	24	0.80
3385180--3385226	18	2.5	19	82	10	60	74	0	0	25	0.82
3386746--3386785	21	1.9	21	94	0	71	32	30	5	32	1.79
3386753--3386802	21	2.4	21	86	0	64	32	28	6	34	1.81
3390487--3390511	2	12.5	2	100	0	50	52	0	0	48	1.00
3398771--3398843	29	2.5	29	97	2	137	27	8	16	47	1.74
3399185--3399239	8	6.8	8	78	17	60	70	0	3	25	1.03
3399205--3399277	29	2.5	29	74	14	69	71	1	1	26	1.02
3400702--3400810	31	3.6	30	68	23	77	48	7	2	41	1.45
3400836--3400957	36	3.6	34	77	15	126	45	7	3	44	1.48
3400872--3401052	35	5.3	34	78	13	178	45	6	2	45	1.41
3400836--3401048	68	3.1	66	80	12	229	44	7	3	45	1.47
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3402354--3402598	80	3.1	80	91	1	388	24	11	24	39	1.89
3403636--3403823	96	2.0	96	95	4	348	27	15	17	39	1.90
3404207--3404558	92	3.8	93	78	9	373	57	3	32	6	1.43
3404236--3404519	96	3.1	92	79	10	300	57	4	32	6	1.43
3404420--3404467	21	2.3	21	89	7	71	58	2	35	4	1.29
3404420--3404479	21	2.9	21	85	5	68	58	3	33	5	1.36
3404635--3404729	42	2.4	39	77	14	104	62	1	31	5	1.24
3404734--3404985	111	2.4	108	79	11	256	57	1	32	7	1.36
3404907--3404963	12	4.5	12	77	12	51	66	1	28	3	1.18
3404717--3405088	105	3.5	105	76	15	286	57	2	31	7	1.40
3405021--3405081	13	4.7	12	73	15	50	65	1	31	1	1.12
3405014--3405112	36	2.8	37	77	16	102	59	2	33	5	1.30
3405106--3405143	14	2.6	14	95	4	67	63	5	28	2	1.30
3405801--3405872	36	2.0	36	100	0	144	25	13	22	38	1.91
3412736--3413039	158	2.0	153	96	3	563	35	12	16	35	1.86
3413219--3413700	131	3.7	131	87	1	707	34	12	12	41	1.80
3413227--3413700	262	1.8	261	91	2	781	34	12	12	41	1.80
3413563--3414448	380	2.3	379	86	3	1210	33	13	13	39	1.83
3426843--3427046	101	2.0	102	97	2	385	32	19	16	31	1.94
3429426--3429566	69	2.0	70	97	2	266	31	28	11	29	1.91
3430375--3430414	21	1.9	21	85	10	55	35	10	2	52	1.48
3438565--3438797	60	3.9	60	80	2	238	33	20	17	28	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3441280--3441357	23	3.3	23	85	1	102	33	23	19	24	1.97
3441364--3441581	103	2.1	103	94	0	382	37	23	13	25	1.91
3445719--3445816	28	3.4	28	83	10	124	43	32	9	14	1.77
3445719--3445821	32	3.3	32	88	8	133	42	33	9	13	1.77
3445799--3445946	32	4.4	32	78	9	152	39	24	10	26	1.87
3445805--3445939	70	1.9	70	89	0	207	37	23	10	28	1.88
3451835--3451861	2	13.5	2	100	0	54	48	0	0	51	1.00
3451913--3452160	37	6.6	37	83	7	231	44	4	6	44	1.48
3451952--3452166	37	5.8	36	85	9	240	44	4	5	45	1.48
3451952--3452167	73	2.9	73	83	9	249	44	4	5	45	1.47
3453001--3453062	28	2.2	28	97	0	115	12	20	8	58	1.60
3453228--3453360	29	4.8	29	71	19	83	17	4	6	72	1.22
3453252--3453349	52	1.9	51	83	10	128	16	4	5	74	1.15
3454861--3454898	2	19.5	2	94	5	69	52	0	0	47	1.00
3454860--3454899	19	2.1	19	100	0	80	55	0	0	45	0.99
3454863--3454896	17	2.0	17	100	0	68	52	0	0	47	1.00
3454886--3454944	28	2.1	28	83	0	73	62	1	3	32	1.21
3456645--3457307	104	6.4	103	90	4	980	21	18	25	33	1.96
3458055--3458164	59	1.9	58	88	3	168	13	20	11	53	1.71
3468512--3468595	40	2.1	41	84	6	109	63	1	3	32	1.19
3468686--3468737	24	2.2	24	100	0	104	48	11	5	34	1.63
3471779--3471869	34	2.7	34	91	3	148	30	17	2	49	1.59
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3474523--3474568	12	3.8	12	74	25	51	15	13	13	58	1.63
3474524--3474581	25	2.3	25	93	0	107	12	15	13	58	1.63
3474536--3474581	13	3.6	13	72	16	51	10	17	13	58	1.62
3480424--3481229	260	3.1	260	85	5	1065	33	16	15	34	1.90
3481045--3481147	42	2.5	42	82	4	129	23	24	20	32	1.98
3483158--3483337	34	5.3	34	87	2	238	31	16	2	50	1.58
3485587--3485668	43	1.9	43	85	5	112	17	25	28	29	1.97
3487808--3487858	23	2.4	22	90	9	79	29	25	19	25	1.99
3488409--3488439	15	2.1	15	93	0	53	32	22	12	32	1.92
3494666--3494735	23	3.2	21	84	10	52	31	27	14	27	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