genome.fa.s8033.2.7.7.80.10.50.1000.2.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: VEPZ01008033.1 Hibiscus syriacus cultivar Beakdansim tig00110515_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3048429

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

This is table  2  of  14  ( 1580 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)
250430--250480	8	6.2	8	76	19	52	13	0	25	60	1.33
250432--250474	17	2.5	17	88	0	68	13	0	25	60	1.34
251073--251279	74	2.8	74	82	5	238	24	29	24	21	1.99
259206--259240	8	4.6	8	86	13	56	80	0	20	0	0.72
259186--259253	7	9.1	7	77	17	57	79	0	14	5	0.91
259205--259253	22	2.2	22	88	0	71	81	0	14	4	0.83
260537--260980	123	3.6	124	91	2	688	39	14	20	25	1.90
260912--261118	111	1.9	111	87	1	308	37	15	18	28	1.92
260898--261163	111	2.4	108	79	6	300	37	14	19	28	1.91
261232--261568	135	2.5	135	80	8	369	40	12	19	27	1.87
261787--261856	16	4.4	16	87	5	97	37	0	0	62	0.95
261804--261880	9	8.6	9	80	13	79	44	1	0	54	1.08
261787--261856	3	24.0	3	78	11	74	37	0	0	62	0.95
262558--262614	25	2.3	25	100	0	114	12	26	49	12	1.75
263811--264198	195	2.0	194	95	4	712	37	19	12	30	1.88
269653--269721	34	2.1	33	86	8	95	26	18	5	49	1.70
271983--272020	4	9.8	4	83	16	53	76	0	0	23	0.79
272245--272285	17	2.3	19	87	8	59	65	12	4	17	1.42
272983--273023	17	2.4	17	84	11	57	7	29	0	63	1.21
276008--276049	22	2.0	21	85	4	57	40	2	0	57	1.12
275976--276072	50	1.9	52	83	8	128	39	5	1	54	1.29
276877--276948	24	3.0	24	97	0	135	33	15	12	38	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
280944--280988	21	2.1	22	84	12	58	51	28	0	20	1.48
281322--281357	7	5.1	7	93	0	63	41	2	27	27	1.70
282240--282285	23	2.0	23	91	0	74	30	26	26	17	1.97
288420--288515	23	4.0	24	70	17	74	29	25	23	21	1.99
288628--288695	24	2.8	24	97	0	127	27	26	27	17	1.98
305823--305863	16	2.6	15	85	11	55	85	2	9	2	0.78
306867--307029	32	5.1	32	90	1	245	30	13	22	33	1.93
307136--307290	34	4.6	34	88	4	224	31	21	13	33	1.92
307532--307677	36	4.1	36	92	0	211	26	22	13	37	1.91
307593--307657	21	3.4	21	68	24	70	24	26	12	36	1.91
307663--307739	39	2.0	39	81	0	91	31	20	12	35	1.91
307760--307948	43	4.4	43	85	4	256	28	12	29	30	1.93
307760--307951	86	2.2	86	92	1	323	28	12	29	29	1.93
308033--308437	90	4.5	90	90	2	618	25	18	21	34	1.96
308033--308437	181	2.3	180	92	1	670	25	18	21	34	1.96
308624--308660	3	12.7	3	88	5	58	37	0	0	62	0.96
314643--314704	24	2.6	24	84	0	79	24	41	14	19	1.88
314751--314797	16	2.9	16	83	3	67	27	17	21	34	1.95
316947--317259	55	5.7	55	82	4	373	32	16	17	33	1.92
320175--320207	16	2.1	16	100	0	66	45	18	0	36	1.49
321855--321894	21	1.9	21	89	0	62	10	25	40	25	1.86
321875--321937	20	2.9	21	79	9	65	15	25	34	23	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
331180--331224	22	2.0	22	91	0	72	22	46	22	8	1.79
331232--331384	29	5.3	29	74	4	121	29	7	22	41	1.80
331261--331415	29	5.3	29	72	14	113	29	6	21	42	1.77
332149--332186	14	2.6	14	84	15	51	21	13	15	50	1.78
332641--332674	18	1.9	18	88	5	52	20	0	14	64	1.28
332905--332944	20	2.0	20	100	0	80	5	30	25	40	1.77
336864--338040	105	11.3	105	92	2	1853	22	17	26	33	1.96
336864--338004	207	5.5	208	94	1	1898	22	17	26	33	1.96
338644--338801	68	2.4	65	82	4	190	36	8	22	32	1.85
338645--338826	68	2.7	66	80	3	170	37	8	21	31	1.84
338725--339037	137	2.3	137	84	1	412	39	13	20	26	1.90
338906--339056	36	4.1	36	91	1	248	40	14	19	25	1.90
338813--339000	102	1.8	102	88	2	288	40	14	19	26	1.89
339960--340057	22	4.5	22	93	0	169	22	14	26	36	1.92
340645--340708	21	3.1	21	84	8	71	0	10	4	84	0.76
340646--340717	29	2.5	29	79	4	92	0	13	5	80	0.88
340658--340722	26	2.4	28	82	7	71	1	12	4	81	0.91
340656--340708	1	53.0	1	78	0	52	0	7	3	88	0.61
341887--341925	8	5.0	8	84	6	53	58	12	17	10	1.61
341887--341925	15	2.5	15	87	4	51	58	12	17	10	1.61
343310--343338	5	5.8	5	100	0	58	82	0	0	17	0.66
345044--345086	18	2.5	17	85	7	61	67	2	4	25	1.22
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
345837--345887	24	2.2	23	83	10	68	25	19	19	35	1.95
345844--345889	24	1.9	24	100	0	92	21	19	17	41	1.90
346782--346830	19	2.7	18	87	6	71	77	0	4	18	0.92
347208--347248	12	3.3	12	89	3	64	9	29	24	36	1.87
347474--347648	76	2.3	75	80	3	181	56	12	2	29	1.49
349288--349329	14	3.0	14	89	0	66	73	0	4	21	1.01
349288--349329	19	2.2	19	91	8	68	73	0	4	21	1.01
349285--349329	5	9.4	5	85	9	58	73	0	4	22	1.01
353906--354019	29	4.0	29	91	2	176	36	25	7	30	1.83
353906--354020	57	2.0	57	91	0	185	36	25	6	31	1.82
354055--354101	19	2.6	17	87	12	67	25	31	27	14	1.95
354055--354103	18	2.6	20	90	9	77	26	32	26	14	1.94
361031--361136	29	3.7	29	84	2	133	36	25	6	31	1.82
361155--361186	12	2.7	12	100	0	64	12	25	46	15	1.81
361139--361174	17	2.1	18	89	5	56	11	22	47	19	1.80
361196--361259	19	3.4	19	88	0	92	18	26	31	23	1.98
362042--362090	19	2.6	18	81	9	62	73	2	2	22	1.04
362040--362094	23	2.4	22	81	6	56	72	1	1	23	1.04
362677--362855	64	2.8	64	96	1	324	54	17	0	27	1.43
367829--367874	3	15.3	3	90	0	65	69	26	0	4	1.07
373530--373596	11	6.7	10	77	16	59	71	0	2	25	1.00
373535--373591	4	13.0	4	77	15	51	70	0	1	28	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
373535--373590	15	3.8	14	75	17	51	71	0	1	26	0.96
373535--373596	19	3.5	18	82	8	74	70	0	3	25	1.02
373557--373591	9	3.9	9	89	10	54	71	0	0	28	0.86
374519--375402	56	15.7	56	76	6	703	34	11	16	37	1.85
374532--375196	170	3.9	167	80	5	601	34	11	16	37	1.84
377864--377942	31	2.5	31	93	0	131	20	20	20	39	1.93
383470--383560	31	2.9	31	90	0	137	23	18	19	38	1.93
384408--384441	12	2.8	12	86	0	50	23	23	11	41	1.87
389137--389227	31	2.9	31	90	0	137	23	18	19	38	1.93
390074--390107	12	2.8	12	90	0	59	23	23	14	38	1.92
394808--394898	31	2.9	31	90	0	137	23	18	19	38	1.93
395746--395779	12	2.8	12	90	0	59	23	23	14	38	1.92
397329--397414	2	43.0	2	100	0	172	50	0	0	50	1.00
398264--398649	56	6.9	56	76	9	261	34	10	14	39	1.82
408895--409254	56	6.4	56	77	4	285	35	9	17	38	1.82
409415--409695	56	5.0	56	77	9	250	35	7	16	39	1.77
409002--409770	421	1.8	422	81	4	962	36	7	16	39	1.78
409765--409809	23	2.0	23	82	8	56	37	6	8	46	1.61
409740--409862	56	2.2	56	88	0	174	36	6	13	43	1.69
409002--410038	421	2.5	422	78	7	940	36	7	16	39	1.78
409794--410074	98	2.7	105	78	8	279	37	8	16	38	1.78
409861--410993	56	20.1	56	76	7	848	35	11	15	37	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
409916--410248	171	2.0	170	81	9	394	35	10	16	38	1.83
410108--410416	170	1.8	168	80	8	367	33	12	15	37	1.86
410945--411167	93	2.4	94	80	5	256	38	10	16	34	1.83
411133--411271	56	2.5	57	82	5	158	35	7	12	43	1.71
411191--411369	98	1.8	98	81	2	225	34	10	13	41	1.79
411280--411389	56	1.9	57	87	1	159	36	11	15	36	1.84
411136--411423	154	1.9	154	81	4	348	35	10	14	39	1.80
418963--419012	22	2.2	23	82	3	57	70	4	14	12	1.31
424523--425135	112	5.5	112	74	5	434	36	9	17	37	1.82
424523--425182	56	11.8	56	74	6	320	36	9	16	37	1.82

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