genome.fa.s5853.2.7.7.80.10.50.1000.2.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: VEPZ01005853.1 Hibiscus syriacus cultivar Beakdansim tig00013738_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  876857

Tables:   1   2   3   4   5   

This is table  2  of  5  ( 590 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)
185482--185827	41	8.4	41	71	8	184	29	13	16	41	1.86
185482--185843	164	2.2	164	81	3	399	30	14	16	39	1.88
185714--185864	81	1.9	81	81	2	187	27	16	17	38	1.91
195830--196126	87	3.4	87	83	4	316	26	21	16	34	1.95
195812--196126	43	7.3	42	79	5	263	25	21	17	35	1.95
200926--200965	2	20.0	2	100	0	80	50	0	0	50	1.00
203426--203464	17	2.3	17	86	8	53	46	2	0	51	1.14
204147--204191	22	2.0	24	91	8	76	40	8	8	42	1.67
206438--206487	26	1.9	26	88	8	75	72	2	6	20	1.16
206522--206617	14	6.9	13	73	25	65	78	0	4	17	0.91
206500--206596	38	2.4	42	83	11	121	77	1	6	15	1.02
206534--206600	25	2.8	24	80	10	75	82	0	4	13	0.82
206562--206623	17	3.8	17	77	14	58	74	0	1	24	0.91
206480--206597	21	5.6	20	70	20	62	76	0	7	15	1.05
206617--206641	2	12.5	2	100	0	50	52	0	0	48	1.00
206597--206731	42	3.1	40	78	15	128	62	0	2	35	1.08
206594--206745	46	3.3	45	78	13	168	63	0	1	33	1.10
206566--206656	14	6.4	14	72	20	66	68	0	1	30	0.97
207708--207826	36	3.3	36	80	9	143	38	14	18	28	1.90
207945--208184	102	2.4	102	88	1	338	37	10	18	32	1.86
207991--208460	189	2.5	189	92	0	760	36	11	19	32	1.88
208093--208271	87	2.1	87	90	2	279	35	11	18	34	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
208180--208373	102	1.9	103	92	0	311	36	12	19	31	1.89
208282--208547	87	3.1	87	91	0	442	36	13	18	31	1.89
208093--208652	276	2.0	276	87	2	813	37	12	18	31	1.88
208820--209122	106	2.9	106	85	0	399	25	17	22	34	1.96
210684--210818	69	2.0	69	87	0	198	28	15	19	37	1.92
210891--210932	12	3.3	13	80	12	52	2	14	4	78	1.01
210879--210949	26	2.9	25	82	10	85	4	16	2	76	1.07
210911--210941	16	1.9	16	93	0	53	3	12	3	80	0.95
210890--210942	28	2.0	25	89	10	79	3	15	3	77	1.06
213552--213618	9	7.2	9	79	17	57	77	0	4	17	0.93
213566--213625	29	2.1	28	81	9	68	76	0	5	18	0.96
213554--213665	38	3.0	36	80	8	109	74	0	3	22	0.97
213558--213731	40	4.2	40	76	14	140	67	0	4	27	1.12
213718--213747	2	15.0	2	100	0	60	50	0	0	50	1.00
213991--214040	21	2.4	21	89	0	73	8	20	12	60	1.57
216703--216739	15	2.5	15	90	0	65	18	5	24	51	1.67
217294--217356	9	6.2	10	73	21	51	30	3	0	66	1.07
217291--217375	20	4.0	23	73	15	85	34	3	0	62	1.12
217601--217692	32	2.8	32	79	8	105	23	14	22	39	1.91
218805--218837	6	5.5	6	100	0	66	18	0	30	51	1.46
224978--225399	211	2.0	211	99	0	835	39	7	10	42	1.69
225990--226029	15	2.5	17	88	8	57	17	7	0	75	1.03
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
242431--242470	14	3.1	13	82	10	55	60	0	0	40	0.97
242449--242494	23	2.1	23	84	8	60	43	0	0	56	0.99
243623--243668	19	2.4	19	88	0	65	19	19	45	15	1.85
243791--243868	3	26.0	3	86	0	111	60	0	0	39	0.97
243794--243879	15	5.3	16	77	13	70	60	0	0	39	0.97
244091--244647	226	2.5	225	92	2	901	30	17	14	37	1.90
244091--244647	113	5.0	113	87	3	768	30	17	14	37	1.90
245372--245921	85	6.6	84	92	3	889	36	21	14	27	1.93
245372--245920	168	3.3	167	91	3	924	36	21	14	27	1.93
245372--245920	251	2.2	253	97	0	1039	36	21	14	27	1.93
246968--247045	1	78.0	1	76	0	75	0	11	0	88	0.52
246968--247055	20	4.3	20	88	7	133	0	13	0	86	0.57
246968--247045	11	7.4	11	85	8	117	0	11	0	88	0.52
254306--254338	15	2.3	15	89	5	50	48	3	0	48	1.17
258367--258406	14	3.1	13	82	10	55	60	0	0	40	0.97
259512--259557	19	2.4	19	88	0	65	19	19	45	15	1.85
259677--259749	3	25.0	3	86	10	107	64	0	0	35	0.94
259678--259760	9	7.6	11	81	18	63	65	0	0	34	0.93
266417--266589	91	1.9	90	82	11	219	28	18	22	30	1.97
268787--268870	21	3.9	21	75	13	71	21	23	28	26	1.99
268787--268869	23	3.8	22	74	14	64	21	24	28	25	1.99
274706--274736	16	1.9	16	93	0	53	35	22	6	35	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
277966--277998	14	2.4	14	100	0	66	48	15	0	36	1.45
278679--278739	23	2.7	23	73	19	63	21	24	22	31	1.98
298712--298744	16	2.1	16	94	0	57	42	18	9	30	1.81
306376--306419	21	2.1	21	86	0	61	54	15	0	29	1.42
310045--310088	14	3.1	14	75	18	54	61	2	2	34	1.21
310567--311359	106	7.6	106	92	3	1308	23	17	25	33	1.96
310852--311007	43	3.4	43	69	13	141	21	18	25	34	1.96
310615--311352	306	2.4	307	96	3	1327	23	17	24	34	1.96
315997--316059	25	2.5	26	84	7	76	73	3	4	19	1.15
317804--319379	105	15.1	105	88	3	2226	23	18	25	33	1.97
318292--318447	43	3.4	43	68	14	134	21	18	26	33	1.96
318350--319379	211	4.9	210	92	1	1589	23	18	24	33	1.97
323153--323215	25	2.5	26	84	7	76	73	3	4	19	1.15
323131--323289	26	5.9	27	69	13	71	69	3	3	23	1.20
323244--323279	18	2.1	18	89	5	56	72	2	0	25	0.98
330085--330114	2	15.0	2	100	0	60	50	0	0	50	1.00
330099--330288	36	5.1	37	72	19	121	45	5	6	42	1.55
330191--330215	12	2.1	12	100	0	50	40	8	8	44	1.63
330162--330283	38	3.4	38	82	9	143	45	6	7	40	1.58
330259--330315	26	2.2	25	78	6	60	49	5	5	40	1.48
330291--330380	36	2.4	38	83	7	112	45	0	5	48	1.25
331714--331748	2	17.5	2	100	0	70	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)
331774--331830	4	15.0	4	74	17	50	24	1	0	73	0.92
331792--331828	13	2.7	14	84	16	51	21	0	0	78	0.75
331773--331827	19	2.9	19	78	10	67	23	1	0	74	0.91
331893--331922	13	2.4	13	94	5	53	43	0	0	56	0.99
336962--337722	165	4.6	164	87	3	888	30	24	20	24	1.98
336962--337722	329	2.3	329	83	3	904	30	24	20	24	1.98
338370--338394	12	2.1	12	100	0	50	40	8	8	44	1.63
338341--338462	38	3.4	36	83	7	151	45	6	7	40	1.58
338438--338494	26	2.2	25	78	6	60	49	5	5	40	1.48
338470--338559	36	2.4	38	83	7	112	45	0	5	48	1.25
339943--339984	14	3.2	13	80	6	50	23	2	0	73	0.94
340055--340084	12	2.4	13	94	5	53	40	0	0	60	0.97
344312--344344	15	2.3	15	89	5	50	57	6	15	21	1.59
347956--348298	132	2.6	133	83	3	458	23	17	31	27	1.97
348202--348308	40	2.6	40	82	7	117	23	19	33	23	1.97
348554--348739	97	1.9	98	82	10	238	41	12	15	29	1.84
348634--348694	31	1.9	32	90	3	97	40	13	13	32	1.82
348554--348760	98	2.1	96	79	12	210	42	12	15	29	1.84
349199--349279	31	2.5	33	78	7	96	35	14	18	30	1.91
349293--349421	36	3.6	34	79	10	125	37	9	18	34	1.83
350127--351026	4	227.0	4	98	1	1744	25	0	24	50	1.50
352213--352279	11	6.2	11	80	13	77	0	16	5	77	0.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
352213--352275	32	2.0	32	84	12	85	0	15	4	79	0.90
352224--352306	20	4.2	19	77	11	69	0	16	4	78	0.92
352254--352297	13	3.3	13	82	17	63	0	15	6	77	0.97
352192--352310	27	4.5	26	75	18	111	1	16	5	76	1.04
352213--352311	47	2.2	41	83	13	117	0	17	6	76	0.97
354369--354493	49	2.6	49	92	0	178	34	29	7	28	1.84
358100--358134	3	11.7	3	93	0	61	65	0	0	34	0.93
361910--362685	407	1.9	407	96	0	1437	37	17	15	29	1.91
363633--363685	14	3.7	14	78	16	56	75	0	3	20	0.96
363646--363683	11	3.5	11	96	0	67	76	0	0	23	0.79

Tables:   1   2   3   4   5