genome.fa.s7804.2.7.7.80.10.50.1000.2.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: VEPZ01007804.1 Hibiscus syriacus cultivar Beakdansim tig00110122_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1697051

Tables:   1   2   3   4   5   6   7   8   9   

This is table  2  of  9  ( 1034 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)
269257--269658	202	2.0	204	98	1	774	36	12	15	35	1.86
272697--272939	121	2.0	121	100	0	486	28	22	14	34	1.94
276498--276552	19	2.9	18	89	7	83	25	23	29	21	1.99
281375--281421	19	2.6	18	86	6	60	31	25	25	17	1.97
281388--281426	19	2.1	19	95	0	69	28	20	30	20	1.98
283080--283116	17	2.2	17	95	0	65	5	10	56	27	1.55
288843--288885	21	2.0	21	81	0	50	30	18	32	18	1.95
290976--291128	34	4.7	32	86	7	177	22	17	20	39	1.92
291014--291102	11	8.0	11	70	16	58	21	16	21	40	1.91
291000--291128	34	3.9	34	90	4	201	21	17	21	39	1.92
291000--291128	65	1.9	67	90	4	190	21	17	21	39	1.92
291804--291845	14	2.9	15	85	3	59	42	23	7	26	1.80
293331--293405	27	2.8	26	80	9	80	33	6	5	54	1.49
293343--293405	27	2.3	27	86	5	83	34	4	6	53	1.47
294620--294777	79	2.0	79	92	0	262	31	27	14	27	1.95
295045--295075	5	6.2	5	100	0	62	80	0	0	19	0.71
301920--301984	34	1.9	34	87	6	96	43	0	15	41	1.47
304883--305038	25	6.2	25	82	4	190	36	18	0	44	1.50
304883--305036	75	2.1	75	86	4	213	37	18	0	44	1.51
304883--305063	25	7.3	24	79	9	152	36	18	0	44	1.55
307131--307273	64	2.2	63	80	10	157	30	16	23	30	1.96
309796--309926	23	5.8	23	70	16	105	25	20	24	29	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
309823--309902	21	3.7	21	74	12	81	25	20	22	32	1.98
309800--309941	44	3.2	44	90	6	200	27	19	23	29	1.98
319662--319695	17	2.0	17	88	0	50	14	2	29	52	1.56
325619--325771	29	5.3	29	86	8	195	37	20	5	35	1.77
325610--325771	58	2.8	57	88	3	227	38	20	5	35	1.76
325610--325771	87	1.9	87	84	5	220	38	20	5	35	1.76
332865--333026	29	5.6	29	93	0	270	36	22	7	33	1.82
338837--339054	103	2.1	103	96	0	400	24	12	24	38	1.91
339328--339371	20	2.2	20	84	12	54	31	2	6	59	1.36
345681--345893	103	2.1	98	93	6	365	23	12	25	38	1.90
345910--345972	23	2.7	23	87	4	92	20	26	26	25	1.99
346132--346347	107	2.0	107	94	5	384	25	17	12	44	1.83
347984--348022	21	1.9	20	94	5	69	30	2	0	66	1.05
348128--348163	17	2.2	16	90	5	54	38	38	2	19	1.66
350585--350680	2	49.0	2	95	4	178	48	0	0	51	1.00
355151--355282	64	2.0	65	86	4	187	20	5	18	56	1.61
355220--355319	53	1.9	51	83	4	128	24	6	18	52	1.67
355228--355331	53	2.0	53	82	0	127	25	7	17	50	1.72
355598--355729	64	2.0	65	86	4	187	20	5	18	56	1.61
355667--355766	53	1.9	51	83	4	128	24	6	18	52	1.67
355675--355778	53	2.0	53	82	0	127	25	7	17	50	1.72
358158--358182	7	3.6	7	100	0	50	32	28	0	40	1.57
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
360778--360850	22	3.7	20	75	21	73	43	1	1	53	1.17
360796--360831	16	2.2	16	90	0	54	38	0	0	61	0.96
360782--360864	38	2.2	38	89	4	123	42	1	1	55	1.15
362869--362962	47	2.0	47	85	4	127	28	19	29	22	1.98
364527--364553	4	6.8	4	100	0	54	22	0	0	77	0.76
367434--367501	30	2.3	30	84	0	82	42	19	5	32	1.75
374625--374669	16	2.8	16	75	0	54	80	0	15	4	0.87
374624--374666	23	1.9	22	95	4	77	76	0	18	4	0.95
375669--376029	135	2.6	135	87	6	471	27	30	19	22	1.98
379424--379503	38	2.1	38	97	0	151	36	13	20	30	1.91
381535--381581	25	1.9	25	86	4	69	55	17	2	25	1.53
384705--384910	102	2.0	102	96	0	376	22	19	30	27	1.98
392373--393031	138	4.8	138	89	0	951	24	20	23	32	1.98
393156--393283	63	2.0	63	90	0	202	38	0	22	38	1.60
393349--393379	14	2.2	14	100	0	62	25	0	16	58	1.38
393487--393559	34	2.1	34	92	0	119	38	6	4	50	1.48
394069--394138	21	3.3	20	88	5	95	21	24	35	18	1.95
395758--395806	20	2.5	19	81	15	55	63	2	0	34	1.06
395907--395947	21	1.9	22	90	5	66	60	0	0	39	0.96
396208--396350	60	2.4	60	82	4	164	20	32	27	18	1.96
401438--401477	21	1.9	21	84	0	53	30	27	17	25	1.97
403958--404010	26	2.0	27	81	7	63	41	16	0	41	1.49
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
408663--408712	19	2.6	19	87	0	64	20	34	16	30	1.94
413349--413385	6	6.2	6	100	0	74	83	0	16	0	0.64
414470--414578	55	2.0	54	85	1	146	34	4	33	27	1.77
414630--414654	13	1.9	13	100	0	50	52	0	0	48	1.00
418368--418425	29	2.0	29	89	0	89	15	36	25	22	1.94
418465--418535	10	6.7	10	73	23	65	25	38	26	9	1.87
418468--418495	14	2.0	14	100	0	56	21	42	28	7	1.79
418482--418536	20	2.8	20	94	0	101	27	36	27	9	1.87
418482--418535	10	5.4	10	79	16	67	25	37	27	9	1.87
418648--418707	23	2.6	23	81	0	66	10	35	25	30	1.88
418690--418722	14	2.4	14	94	0	57	6	30	39	24	1.79
419004--419050	22	2.1	22	84	0	58	57	29	8	4	1.48
419020--419127	31	3.5	31	77	14	114	55	27	9	7	1.58
419069--419171	33	3.2	33	83	6	122	48	27	11	12	1.76
419115--419177	17	3.8	17	76	4	65	41	28	11	19	1.85
419810--419839	14	2.1	14	93	0	51	40	16	0	43	1.48
420479--420538	21	2.8	21	84	2	75	73	0	6	20	1.05
420479--420535	7	8.0	7	78	3	51	73	0	7	19	1.05
420479--420535	14	4.0	14	79	2	60	73	0	7	19	1.05
425232--425282	20	2.5	20	100	0	102	58	3	9	27	1.47
428780--428816	16	2.4	16	95	4	67	43	16	10	29	1.82
429678--429750	21	3.5	21	80	0	74	30	30	10	28	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
432097--432130	18	1.9	17	88	5	50	26	0	5	67	1.13
438554--438595	20	2.1	20	86	0	57	33	23	11	30	1.91
441149--441203	26	2.1	26	86	0	74	23	12	25	38	1.90
444347--444388	22	1.9	22	90	0	66	23	23	21	30	1.99
444346--444394	22	2.2	22	81	0	62	24	26	18	30	1.98
451098--451153	22	2.8	20	84	15	71	26	17	28	26	1.98
451045--451266	95	2.3	94	79	10	229	30	14	25	30	1.95
451209--451270	22	3.0	21	84	13	83	32	16	27	24	1.96
451209--451270	21	3.0	20	82	17	81	32	16	27	24	1.96
451614--451833	59	3.7	59	90	1	325	35	10	23	30	1.89
457815--457872	22	2.7	23	84	10	70	34	17	22	25	1.96
457812--457872	21	2.9	20	80	17	70	32	16	26	24	1.96
458188--458401	59	3.6	59	87	1	304	34	11	23	30	1.90
458777--458858	32	2.6	32	78	5	87	40	6	19	34	1.76
475228--475266	18	2.2	18	95	4	71	41	12	5	41	1.65
475250--475337	36	2.4	36	88	7	133	43	11	2	43	1.53
475648--475862	79	2.7	78	75	2	214	24	17	23	34	1.95
475913--476637	200	3.6	199	83	3	913	28	21	19	31	1.97
478414--478453	20	2.0	21	95	5	73	30	22	20	27	1.98
482251--482279	14	2.1	14	100	0	58	31	13	27	27	1.94
486667--486793	23	5.4	23	81	3	101	22	14	7	55	1.63
488673--488858	37	5.0	37	77	14	186	44	4	6	43	1.52
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
488672--488886	38	5.7	35	77	11	162	46	4	6	43	1.49
488659--488886	40	5.9	39	77	12	174	45	4	6	43	1.50
489008--489035	11	2.5	11	100	0	56	42	0	0	57	0.99
489263--489292	16	1.9	15	93	6	51	20	40	26	13	1.89
489834--489866	15	2.1	16	88	5	50	15	12	6	66	1.42
489976--490073	8	12.0	8	69	16	58	15	5	2	77	1.03
490012--490102	43	2.1	44	81	6	105	17	6	3	72	1.20
491380--491404	13	1.9	13	100	0	50	24	0	4	72	1.02
491377--491424	17	2.8	17	84	12	55	22	4	4	68	1.24
492574--492606	15	2.1	16	88	5	50	15	12	6	66	1.42

Tables:   1   2   3   4   5   6   7   8   9