genome.fa.s9624.2.7.7.80.10.50.1000.2.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: VEPZ01009624.1 Hibiscus syriacus cultivar Beakdansim tig00117016_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  8249038

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   26   27   28   29   30   31   32   
          33   34   35   36   37   38   

This is table  2  of  38  ( 4514 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)
203898--203936	13	3.0	13	96	0	69	15	12	0	71	1.14
203826--204012	101	1.8	102	89	1	295	24	13	8	54	1.67
204507--204736	74	3.1	71	82	13	213	24	13	8	53	1.67
204580--206045	89	16.8	89	84	7	1691	23	13	10	53	1.70
204063--206045	178	11.5	178	82	10	2192	23	12	10	53	1.69
204063--206045	267	7.7	266	83	9	2213	23	12	10	53	1.69
210459--210487	2	14.5	2	100	0	58	51	0	0	48	1.00
212727--213162	139	3.1	138	81	3	482	26	16	27	29	1.97
213158--213360	67	3.0	67	82	3	248	37	14	16	31	1.89
213308--213659	99	3.5	99	79	6	336	36	11	16	35	1.85
213675--213749	38	2.0	37	84	2	96	37	10	16	36	1.83
213679--213804	36	3.4	36	76	10	105	38	11	16	33	1.84
214519--214601	23	3.7	22	74	7	78	36	26	20	16	1.94
214527--214622	23	4.1	23	72	4	77	38	27	16	17	1.91
238009--238190	98	1.8	101	84	4	253	23	20	29	26	1.99
238207--238265	18	3.1	18	79	13	64	40	11	13	33	1.81
238213--238265	21	2.7	20	88	11	83	41	13	15	30	1.85
243472--243584	8	13.6	8	73	22	74	75	0	14	10	1.05
243471--243512	16	2.6	16	100	0	84	69	0	19	11	1.19
243483--243536	28	1.9	28	85	7	74	72	0	14	12	1.13
243488--243584	47	2.0	48	86	5	135	76	0	13	10	1.02
247896--247921	11	2.4	11	100	0	52	46	7	0	46	1.31
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
253577--253610	17	1.9	18	88	5	52	55	0	2	41	1.15
253825--253875	2	25.5	2	100	0	102	50	0	0	49	1.00
253948--254028	30	2.7	29	77	12	83	55	11	14	18	1.68
256401--256463	28	2.3	28	80	2	74	47	7	1	42	1.42
256981--257025	21	2.1	21	91	0	72	40	2	0	57	1.11
257067--257091	12	2.1	12	100	0	50	44	8	0	48	1.32
259660--259731	37	1.9	37	91	0	117	36	26	9	27	1.88
260278--260400	60	2.0	60	81	3	140	38	16	9	35	1.81
261128--261175	23	2.1	23	92	0	78	35	8	18	37	1.81
261890--262044	70	2.2	70	91	0	247	34	16	10	38	1.84
262212--262559	112	3.1	113	91	2	564	25	15	14	44	1.84
272536--272566	16	1.9	16	100	0	62	29	45	19	6	1.75
277631--277728	8	10.6	9	75	20	71	41	5	1	52	1.30
277625--277725	10	9.6	10	71	20	55	40	4	1	52	1.34
277666--277728	2	32.0	2	79	20	71	44	4	0	50	1.23
277949--277994	24	1.9	24	82	8	58	36	10	2	50	1.50
278638--278861	22	10.3	23	73	18	121	52	0	10	36	1.42
278692--278861	36	4.7	37	85	9	235	54	1	7	37	1.37
278692--278860	57	3.1	58	81	15	200	54	1	7	36	1.37
279543--279592	3	16.7	3	95	0	91	30	0	2	68	1.01
290307--290354	21	2.3	21	88	0	69	39	22	10	27	1.87
290978--291029	22	2.5	20	80	17	61	32	28	11	26	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
290991--291052	22	2.8	22	92	2	97	32	32	9	25	1.88
293554--293603	20	2.5	20	83	6	66	38	2	12	48	1.52
295375--295423	19	2.5	19	87	9	64	40	2	10	46	1.49
295576--295615	20	2.0	20	95	0	71	37	20	7	35	1.81
295649--295701	20	2.7	20	82	8	63	37	13	13	35	1.83
296391--296442	20	2.5	21	84	6	79	30	21	17	30	1.96
297572--297642	20	3.6	20	78	1	72	32	8	19	39	1.82
299815--299886	20	3.6	20	82	0	99	44	18	20	16	1.87
299743--299975	117	2.0	117	89	0	358	44	16	15	23	1.86
299980--300130	57	2.6	56	86	8	214	37	19	18	24	1.94
300301--300423	57	2.2	57	91	1	194	27	14	21	36	1.92
300301--300447	57	2.6	57	85	1	188	25	16	21	36	1.94
302907--302944	15	2.4	16	86	8	51	50	0	0	50	1.00
305779--305818	2	20.0	2	100	0	80	50	0	0	50	1.00
310490--310628	62	2.2	63	88	1	208	48	7	15	28	1.71
310764--310788	3	8.3	3	100	0	50	0	32	0	68	0.90
315128--315191	31	2.1	31	87	0	92	34	12	28	25	1.92
316666--316695	15	1.9	16	93	6	53	16	0	33	50	1.46
320169--320252	23	3.7	23	80	0	114	33	23	21	21	1.97
320805--320857	18	2.7	19	76	18	63	22	37	13	26	1.91
320911--320943	2	16.5	2	100	0	66	48	0	0	51	1.00
323223--323282	21	2.8	20	85	12	68	28	21	23	26	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
332303--332371	27	2.5	28	81	6	88	37	20	18	23	1.94
332304--332354	14	3.8	13	76	23	52	39	21	15	23	1.92
334533--334653	35	3.5	35	93	0	206	51	20	2	25	1.60
334638--334728	40	2.4	39	85	8	118	52	18	3	25	1.60
334480--334688	70	2.9	70	79	8	233	51	20	3	24	1.64
335805--335855	25	2.0	25	92	0	84	27	21	25	25	1.99
343331--343410	25	3.2	25	83	1	90	28	18	26	26	1.98
346461--346516	21	2.7	21	100	0	112	32	10	10	46	1.73
346948--347606	343	1.9	343	93	0	1147	27	15	12	43	1.83
355729--355776	21	2.5	18	75	15	51	35	0	0	64	0.94
356919--357060	70	2.0	70	98	0	275	33	17	11	38	1.85
361107--361137	16	1.9	16	93	0	53	74	3	0	22	0.96
362806--363040	84	2.8	83	88	1	362	24	19	26	29	1.98
362910--363155	130	1.9	133	85	2	345	25	21	25	27	2.00
363078--363284	84	2.5	83	84	2	263	23	21	24	30	1.99
373498--373528	12	2.6	12	100	0	62	22	25	9	41	1.84
373628--374110	4	120.8	4	99	0	957	50	24	0	25	1.50
386526--386582	21	2.7	21	94	2	96	28	12	21	38	1.89
392216--392263	24	2.0	24	100	0	96	20	8	25	45	1.79
395781--395860	29	2.8	29	90	0	124	40	12	3	43	1.60
396952--397035	17	4.8	17	73	18	66	55	1	0	42	1.07
396950--397056	21	5.4	19	71	22	87	55	1	0	42	1.10
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
396987--397080	40	2.3	38	81	15	118	56	2	1	40	1.18
396952--397080	39	3.3	39	80	13	131	55	1	0	42	1.15
397004--397075	20	3.7	19	71	12	65	55	2	1	40	1.23
397126--397187	19	3.0	21	73	20	67	45	1	1	51	1.20
397109--397188	41	2.0	39	85	4	106	46	2	1	50	1.23
397034--397260	70	3.1	70	85	9	246	47	6	2	44	1.40
397836--397866	2	15.5	2	100	0	62	51	0	0	48	1.00
408019--408100	24	3.5	24	93	1	130	48	17	12	21	1.79
414230--414332	36	2.8	37	80	10	115	33	20	11	33	1.89
414491--414703	65	3.3	65	84	5	245	25	21	12	40	1.88
415249--415286	3	12.7	3	94	0	67	34	2	0	63	1.09
419329--419360	15	2.1	15	100	0	64	34	12	6	46	1.67
420514--420818	34	8.6	34	78	14	210	46	3	4	44	1.43
420514--420818	36	8.5	36	77	17	239	46	3	4	44	1.43
420707--420768	29	2.2	28	85	2	79	48	3	4	43	1.40
420598--420762	79	2.1	77	80	11	185	46	5	5	43	1.50
420713--420801	12	7.0	12	69	16	54	50	2	2	44	1.26
420735--420828	34	2.6	35	86	11	127	48	0	4	46	1.21
420825--420905	16	5.1	16	70	12	51	19	4	1	74	1.08
420843--420905	24	2.7	21	80	20	72	20	4	0	74	0.99
421444--421778	163	2.0	168	94	4	599	54	27	12	5	1.60
422302--422336	5	6.6	5	87	12	52	20	2	2	74	1.08
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
422383--422420	3	12.7	3	100	0	76	31	0	0	68	0.90
422562--422620	10	6.3	9	72	20	50	23	0	3	72	0.99
422562--422614	11	5.3	11	80	13	53	22	0	3	73	0.99
422562--422620	28	2.1	28	100	0	118	23	0	3	72	0.99
425907--426083	95	1.9	95	87	0	264	33	18	18	30	1.94
427229--428268	84	12.4	83	79	3	890	30	24	20	25	1.98
427229--428268	169	6.2	167	83	3	950	30	24	20	25	1.98
427259--428268	253	4.0	250	83	4	1045	30	24	20	25	1.99
427229--428267	334	3.1	331	82	2	1154	30	24	20	25	1.98
427267--428251	418	2.4	416	82	5	1212	30	24	20	25	1.99

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   26   27   28   29   30   31   32   
          33   34   35   36   37   38