genome.fa.s9625.2.7.7.80.10.50.1000.20.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  20  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)
5680642--5680779	22	6.0	22	77	12	93	32	2	0	65	1.05
5680685--5680757	25	3.0	25	84	6	78	26	2	0	71	1.00
5682639--5682674	16	2.3	15	90	4	54	33	2	5	58	1.36
5682673--5682701	14	2.1	14	100	0	58	58	13	0	27	1.36
5687163--5687243	40	2.0	40	83	6	103	35	22	7	34	1.82
5687175--5687226	9	5.3	9	74	17	50	38	21	3	36	1.72
5687175--5687226	20	2.6	20	100	0	104	38	21	3	36	1.72
5693289--5693340	25	2.1	25	85	7	70	34	5	13	46	1.67
5696839--5696866	14	2.0	14	100	0	56	21	21	35	21	1.96
5697603--5697689	24	3.7	24	82	3	122	36	19	17	26	1.94
5699362--5699404	23	1.9	22	85	4	59	51	4	4	39	1.44
5701161--5701196	5	7.2	5	100	0	72	0	38	0	61	0.96
5701201--5701241	3	13.7	3	100	0	82	31	0	0	68	0.90
5702601--5702636	18	2.0	18	94	0	63	44	19	5	30	1.73
5704300--5704361	31	2.0	30	81	9	72	33	1	0	64	1.03
5706908--5707363	236	1.9	236	86	0	644	29	24	16	30	1.96
5708176--5708240	33	2.0	33	100	0	130	41	18	18	21	1.90
5708372--5708420	21	2.4	21	86	6	66	42	4	12	40	1.61
5715013--5715055	22	1.9	24	86	13	65	48	6	20	23	1.73
5716292--5716350	6	9.5	6	78	7	55	76	1	5	16	1.05
5716289--5716331	20	2.2	20	86	0	59	79	0	2	18	0.85
5725223--5725277	14	4.1	13	77	13	58	18	1	1	78	0.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5725223--5725278	25	2.2	26	81	9	71	19	1	1	76	0.96
5725811--5725854	20	2.2	21	80	12	56	70	2	13	13	1.26
5726700--5726732	13	2.5	13	95	0	57	9	15	0	75	1.03
5732328--5732388	27	2.3	27	100	0	122	24	42	9	22	1.84
5735625--5735692	32	2.1	32	88	0	100	25	29	22	23	1.99
5738888--5738944	8	7.1	8	82	7	62	31	3	28	36	1.74
5739056--5739690	83	7.7	83	85	2	778	32	18	20	28	1.96
5740671--5740745	32	2.3	32	93	0	123	54	20	5	20	1.63
5741876--5741991	57	2.0	57	91	3	189	39	29	16	14	1.88
5742251--5742284	2	18.0	2	88	11	54	50	0	0	50	1.00
5742252--5742298	12	4.0	12	81	13	53	46	4	0	48	1.21
5743112--5743161	19	2.7	19	75	12	50	52	6	0	42	1.26
5745351--5745381	13	2.3	13	94	5	53	61	0	0	38	0.96
5745351--5745381	7	4.6	7	92	8	55	61	0	0	38	0.96
5745594--5745669	2	39.5	2	92	7	131	51	0	0	48	1.00
5745690--5745766	39	2.0	39	87	10	113	72	7	3	15	1.22
5745786--5745839	2	27.5	2	84	3	74	46	0	5	48	1.25
5746931--5746982	24	2.2	24	89	6	79	76	3	3	15	1.07
5747040--5747081	12	3.4	12	90	6	66	52	2	2	42	1.27
5747091--5747258	36	4.6	36	83	8	189	45	4	3	46	1.41
5747126--5747182	11	5.0	11	74	16	53	50	1	1	45	1.22
5747091--5747232	71	2.0	71	91	2	232	45	3	2	47	1.34
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5747274--5747306	2	17.0	2	93	6	59	51	0	0	48	1.00
5747839--5749056	84	14.6	84	81	4	1302	25	19	24	30	1.98
5747839--5748897	249	4.2	249	89	1	1491	25	19	24	30	1.98
5747839--5749056	165	7.3	164	80	5	1151	25	19	24	30	1.98
5752188--5752283	47	2.0	47	100	0	192	37	12	31	18	1.88
5752808--5752870	23	2.7	23	70	18	58	73	4	9	12	1.24
5752868--5752949	28	3.0	26	78	19	80	75	3	2	18	1.06
5752913--5752952	12	3.2	12	89	7	53	77	0	7	15	0.98
5754631--5754694	30	2.1	30	100	0	128	32	23	18	25	1.97
5754708--5754813	31	3.4	32	78	13	121	33	18	17	30	1.95
5755419--5755525	52	2.0	53	98	1	207	39	22	5	32	1.77
5755821--5755860	19	2.1	19	100	0	80	27	10	15	47	1.77
5756993--5757039	11	4.3	11	76	17	53	80	0	2	17	0.80
5756983--5757039	21	2.8	19	80	15	60	80	3	1	14	0.92
5757102--5757137	13	2.8	13	91	4	56	47	2	2	47	1.31
5757102--5757177	12	5.7	12	75	22	62	50	3	2	43	1.34
5757121--5757180	30	1.9	32	86	6	88	48	5	1	45	1.34
5757153--5757293	36	3.9	37	86	6	200	48	2	0	48	1.16
5757155--5757294	71	2.0	71	98	0	271	50	2	0	47	1.16
5779707--5779746	20	2.0	20	90	0	62	30	20	30	20	1.97
5781964--5782031	23	3.0	23	79	10	68	47	14	2	35	1.60
5781968--5782020	27	2.0	27	92	0	88	49	13	1	35	1.53
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5782053--5782286	2	117.5	2	72	18	159	47	5	3	43	1.46
5782095--5782125	13	2.3	14	94	5	55	51	3	6	38	1.44
5783482--5783535	26	2.1	26	92	0	90	24	22	22	31	1.98
5783956--5783989	17	2.1	17	94	5	61	64	29	0	5	1.17
5784711--5784763	20	2.7	20	74	11	63	28	33	15	22	1.94
5784817--5784860	20	2.2	20	91	0	70	36	22	18	22	1.95
5784854--5784960	20	5.4	20	81	10	132	42	27	12	17	1.85
5784854--5784961	39	2.8	40	82	5	130	42	26	12	18	1.85
5784952--5784999	20	2.4	20	79	6	62	35	20	16	27	1.94
5785032--5785075	20	2.2	20	91	0	70	36	22	18	22	1.95
5784789--5785221	215	2.0	217	99	0	852	39	22	14	23	1.91
5785069--5785274	20	10.3	20	76	13	149	42	22	13	21	1.88
5785049--5785194	60	2.4	60	79	10	190	41	23	13	21	1.89
5785263--5785394	19	6.8	19	84	6	140	37	18	11	32	1.87
5785279--5785381	19	5.3	19	89	3	161	35	18	11	33	1.87
5785140--5785296	80	1.9	79	83	8	201	40	21	15	23	1.91
5785277--5785394	58	2.1	57	80	7	141	37	19	11	32	1.87
5785550--5785587	16	2.5	16	87	8	53	31	5	0	63	1.17
5786182--5786215	12	2.8	12	90	0	50	55	29	0	14	1.40
5786244--5786401	20	7.9	20	76	6	126	20	17	22	39	1.92
5786247--5786413	40	4.2	40	75	11	180	20	15	22	40	1.90
5786405--5786445	20	2.0	20	95	0	73	21	14	24	39	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5786408--5786453	20	2.3	20	88	0	65	23	17	21	36	1.94
5786263--5786458	60	3.3	60	70	15	179	21	15	21	40	1.90
5789509--5789546	19	2.0	19	100	0	76	26	21	21	31	1.98
5791289--5791335	24	2.0	24	86	0	67	21	29	29	19	1.97
5791319--5791496	93	1.9	93	92	0	302	28	36	16	18	1.93
5799205--5799241	19	2.0	18	89	5	56	43	16	5	35	1.71
5803622--5803673	20	2.6	20	93	0	86	34	13	19	32	1.90
5804449--5804488	16	2.4	16	84	15	55	70	0	2	27	1.01
5805501--5805534	17	1.9	18	88	5	52	26	20	26	26	1.99
5816451--5816671	44	5.0	42	74	8	156	33	16	19	30	1.94
5816481--5816670	88	2.2	89	79	2	222	34	15	20	30	1.94
5825537--5825667	61	2.1	61	81	5	158	26	17	27	28	1.98
5828558--5828618	20	3.0	20	73	7	59	29	9	29	31	1.89
5829056--5829106	21	2.4	21	83	0	66	35	13	23	27	1.93
5829257--5829347	21	4.2	21	69	15	69	24	18	26	30	1.98
5835360--5835402	20	2.1	21	86	4	61	32	16	23	27	1.96
5836036--5836132	23	4.2	23	94	0	158	23	18	26	30	1.98
5842093--5842130	18	2.2	18	86	9	53	34	7	21	36	1.82
5854159--5854205	23	2.0	23	91	0	76	8	21	17	53	1.70
5854169--5854216	23	2.1	23	84	0	60	12	20	20	45	1.83
5857985--5858034	20	2.5	20	83	0	64	24	20	22	34	1.97
5858170--5858219	20	2.6	19	81	15	59	26	24	18	32	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5861563--5861595	12	2.8	12	90	9	50	3	39	0	57	1.14
5865968--5866026	31	1.9	30	89	3	91	25	6	11	55	1.60
5876609--5876658	24	2.1	24	100	0	100	32	12	30	26	1.92
5879135--5879160	3	8.7	3	100	0	52	69	0	0	30	0.89
5880300--5880359	29	2.1	29	100	0	120	48	20	16	15	1.81
5882316--5882373	27	2.2	26	84	3	71	46	3	1	48	1.29
5882346--5882456	35	3.1	36	72	8	102	44	3	4	47	1.40
5883732--5883778	18	2.6	18	96	0	85	0	31	12	55	1.38
5885825--5885860	2	18.5	2	94	5	65	50	0	0	50	1.00
5886296--5886325	2	15.0	2	92	0	51	46	0	0	53	1.00

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