genome.fa.s9625.2.7.7.80.10.50.1000.18.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: VEPZ01009625.1 Hibiscus syriacus cultivar Beakdansim tig00117017_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  6938204

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   

This is table  18  of  25  ( 2922 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)
5285743--5285807	32	2.0	32	90	0	103	56	23	12	7	1.61
5287323--5287402	24	3.3	24	91	0	124	55	21	8	15	1.67
5293479--5293534	27	2.0	28	89	3	87	44	5	8	41	1.58
5293479--5293548	27	2.6	27	80	13	74	45	8	7	38	1.62
5293688--5293744	22	2.6	22	91	0	87	31	14	36	17	1.89
5293688--5293754	22	3.0	22	82	4	82	29	13	37	19	1.90
5295086--5295814	6	122.8	6	97	2	1393	50	16	0	33	1.46
5298619--5298694	29	2.6	30	81	8	86	18	18	18	44	1.87
5306917--5306947	15	2.1	15	100	0	62	32	25	0	41	1.56
5311501--5311552	23	2.2	24	86	10	79	51	11	3	32	1.56
5312066--5312110	22	2.0	22	100	0	90	31	15	13	40	1.86
5313054--5313174	42	2.9	41	76	7	127	34	20	16	28	1.94
5313063--5313174	41	2.7	41	78	9	129	36	20	16	25	1.94
5312963--5313276	83	3.9	81	75	9	255	31	19	19	29	1.96
5314889--5314971	29	2.8	29	92	1	139	43	9	14	32	1.78
5319607--5319689	29	2.8	29	92	1	139	43	9	14	32	1.78
5321641--5321839	42	4.7	42	79	9	161	39	19	18	23	1.92
5321666--5321839	42	4.1	42	83	4	215	41	19	17	21	1.90
5321660--5321839	85	2.1	84	86	3	245	42	19	17	21	1.90
5326486--5326531	23	2.0	22	88	12	67	63	13	6	17	1.50
5331652--5331698	23	2.0	23	100	0	94	51	8	17	23	1.72
5333307--5333352	22	2.1	21	84	11	58	8	10	6	73	1.23
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5343438--5343501	23	2.6	24	90	7	94	29	1	6	62	1.29
5343987--5344042	14	4.2	14	74	21	57	30	1	0	67	1.01
5343996--5344045	3	16.7	3	80	15	59	30	2	0	68	1.01
5345549--5345582	2	17.0	2	100	0	68	50	0	0	50	1.00
5345863--5346241	189	2.0	188	98	0	731	39	12	12	35	1.82
5348612--5348637	11	2.4	11	100	0	52	46	19	7	26	1.77
5352862--5352995	11	12.5	10	70	14	81	76	0	17	5	1.00
5352863--5352992	6	20.8	6	68	20	63	76	0	17	5	1.02
5352863--5352996	24	5.7	23	71	15	76	76	0	17	5	1.03
5352865--5352941	21	3.5	22	75	12	70	79	0	14	6	0.92
5352885--5352986	34	2.9	34	82	7	114	75	0	18	4	1.04
5352865--5352971	34	3.2	34	80	10	107	76	0	16	5	1.02
5352867--5352979	44	2.5	44	80	8	113	76	0	17	5	1.03
5352904--5352992	23	3.6	24	77	14	76	74	1	20	4	1.06
5352864--5352995	14	8.9	14	66	26	60	76	0	17	5	1.01
5354682--5355941	233	5.4	233	87	2	1693	32	17	16	32	1.93
5354682--5355941	464	2.7	465	87	2	1780	32	17	16	32	1.93
5356091--5356137	3	15.3	3	91	4	76	29	0	0	70	0.88
5357710--5357747	2	19.0	2	100	0	76	50	0	0	50	1.00
5359731--5359765	18	1.9	19	88	11	56	37	11	0	51	1.38
5362967--5363058	46	2.0	46	91	0	148	27	10	27	34	1.90
5364898--5364943	15	3.0	14	84	15	56	60	2	0	36	1.09
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5369640--5369677	4	9.8	4	94	5	69	76	0	23	0	0.79
5371078--5371146	34	2.0	34	94	0	120	13	21	21	43	1.86
5371459--5371716	41	6.0	41	69	13	126	31	16	20	30	1.95
5371461--5371706	86	2.8	87	79	6	264	30	17	20	31	1.95
5375584--5375623	21	1.9	21	89	0	62	50	10	10	30	1.69
5376815--5376867	20	2.7	20	87	0	70	30	20	28	20	1.98
5376887--5376942	20	2.8	20	97	0	103	25	23	26	25	2.00
5382004--5382059	18	3.0	18	73	23	53	73	0	3	23	0.99
5382905--5383066	86	1.9	87	87	3	238	56	11	1	30	1.43
5386711--5387094	194	2.0	194	100	0	768	34	14	26	24	1.94
5387125--5387162	14	2.7	15	84	12	53	71	0	2	26	1.00
5388987--5389049	20	3.2	20	73	20	62	69	0	3	26	1.03
5388986--5389043	17	3.3	18	75	15	68	72	0	3	24	1.00
5391988--5392259	142	1.9	141	82	6	336	32	16	13	37	1.87
5393843--5393924	15	5.5	15	88	2	121	37	7	19	35	1.80
5393843--5393924	30	2.8	30	94	1	139	37	7	19	35	1.80
5393838--5393924	45	2.0	44	93	2	147	40	6	19	33	1.78
5393907--5393976	20	3.5	20	96	0	131	40	10	14	35	1.79
5394241--5394313	8	9.2	8	77	15	55	49	0	0	50	1.00
5394242--5394298	18	2.9	21	78	16	61	50	0	0	49	1.00
5394487--5394606	42	2.9	42	94	0	213	44	18	20	17	1.87
5395680--5395745	30	2.2	30	86	0	87	37	18	15	28	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5397153--5397229	31	2.5	31	97	0	145	35	7	28	28	1.85
5397933--5398269	163	2.1	163	91	1	550	42	12	16	28	1.85
5400813--5400838	12	2.2	12	100	0	52	65	0	26	7	1.20
5403120--5403540	46	9.1	46	82	4	461	25	20	11	41	1.86
5408592--5408998	46	8.8	45	82	5	361	25	21	12	40	1.88
5408586--5408998	92	4.5	91	82	5	483	25	21	12	40	1.89
5408640--5408998	138	2.6	137	84	3	488	25	21	12	40	1.89
5409379--5409416	7	5.4	7	100	0	76	0	39	0	60	0.97
5415863--5415921	30	2.0	30	86	6	84	11	10	1	76	1.10
5417078--5417117	17	2.4	17	86	0	53	87	5	7	0	0.66
5417079--5417123	15	2.9	15	84	12	56	86	4	8	0	0.69
5419387--5419417	2	15.5	2	100	0	62	48	0	0	51	1.00
5421363--5421817	46	9.9	46	91	1	678	22	21	14	41	1.88
5423010--5423042	15	2.1	16	88	5	50	42	12	0	45	1.41
5426123--5426179	29	2.0	29	86	3	80	38	10	21	29	1.87
5428107--5428176	20	3.5	20	78	0	86	24	15	28	31	1.96
5428107--5428197	40	2.3	40	98	0	173	24	16	28	30	1.96
5428126--5428196	20	3.5	20	77	7	90	23	16	29	29	1.97
5430302--5430652	175	2.0	175	100	0	702	34	24	5	35	1.78
5433924--5433973	18	2.8	18	96	0	91	28	34	22	16	1.95
5440633--5440682	21	2.4	21	100	0	100	26	16	10	48	1.77
5440633--5440691	21	2.8	21	89	5	66	23	16	10	49	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5440800--5440839	21	1.9	21	85	10	55	35	10	2	52	1.48
5442790--5442877	45	1.9	46	93	2	151	28	19	25	27	1.99
5445936--5445979	21	2.2	21	88	8	65	40	0	2	56	1.11
5446155--5446181	2	13.5	2	100	0	54	51	0	0	48	1.00
5446298--5446338	19	2.2	19	86	4	57	46	0	0	53	1.00
5448116--5448149	7	5.0	7	96	3	61	14	14	55	14	1.69
5453259--5453295	19	1.9	19	88	0	56	40	8	16	35	1.78
5453781--5453885	37	2.8	37	82	0	129	40	14	14	30	1.85
5454366--5454419	11	5.0	11	72	20	51	33	3	0	62	1.12
5454604--5454632	2	14.5	2	100	0	58	48	0	0	51	1.00
5454759--5454814	19	2.9	19	75	19	62	23	8	1	66	1.30
5457431--5457461	15	2.1	15	100	0	62	38	25	12	22	1.90
5459105--5459171	16	4.2	15	78	14	64	79	8	10	1	1.01
5459769--5459823	22	2.5	22	93	0	92	38	25	10	25	1.88
5460236--5460272	18	2.0	19	89	5	58	18	2	32	45	1.64
5460785--5462060	106	12.0	106	92	0	2014	34	25	17	22	1.96
5462810--5462914	37	2.8	37	86	0	147	40	15	14	30	1.87
5463407--5463439	10	3.7	9	88	11	50	42	0	0	57	0.98
5463579--5463697	22	5.4	22	73	15	86	30	4	0	64	1.18
5463631--5463697	14	4.8	14	74	17	59	28	2	0	68	1.04
5463607--5463696	44	2.1	43	81	10	103	28	4	0	66	1.11
5463748--5463795	20	2.3	21	79	17	55	20	4	2	72	1.11
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5463780--5463834	20	2.8	19	80	20	69	23	10	1	63	1.36
5473725--5473801	31	2.5	31	78	2	82	27	29	27	15	1.96
5473678--5473801	63	2.0	63	82	9	155	26	28	27	17	1.98
5474711--5474757	19	2.5	19	92	0	76	8	21	51	19	1.73
5474733--5474766	14	2.4	14	95	0	59	11	26	47	14	1.79
5474770--5474824	19	2.8	20	88	2	76	32	29	20	18	1.96
5474754--5474821	9	7.1	9	76	12	55	29	30	25	14	1.95
5481068--5481144	31	2.5	31	80	2	91	27	31	27	14	1.95
5481021--5481144	63	2.0	63	81	9	146	26	29	27	16	1.97
5482030--5482075	14	3.3	14	90	0	65	13	23	45	17	1.83

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