genome.fa.s9605.2.7.7.80.10.50.1000.3.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: VEPZ01009605.1 Hibiscus syriacus cultivar Beakdansim tig00116989_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  9158330

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   

This is table  3  of  35  ( 4090 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)
367263--367561	37	8.4	36	73	17	221	42	3	6	48	1.44
367188--367536	140	2.5	140	78	13	305	42	3	7	47	1.48
367357--367423	27	2.5	27	83	9	93	38	4	8	47	1.55
367358--367438	28	2.9	27	82	15	87	40	3	8	46	1.52
367383--367484	41	2.5	41	84	4	127	44	1	4	49	1.35
367294--367484	102	1.8	100	81	11	224	43	2	6	47	1.40
367440--367515	33	2.2	35	84	9	95	44	2	3	48	1.35
367393--367573	72	2.4	78	77	16	195	41	2	6	49	1.42
367393--367573	36	4.9	36	74	18	133	41	2	6	49	1.42
369274--369809	55	9.8	55	90	0	741	35	17	10	35	1.85
370258--370304	19	2.3	22	89	10	73	27	23	14	34	1.94
376459--376582	53	2.4	53	90	1	187	35	22	17	24	1.95
376618--376688	24	3.0	24	67	8	63	47	18	8	25	1.76
383065--383252	103	1.8	104	83	4	256	38	15	16	29	1.90
391003--391322	160	2.0	160	95	0	579	39	19	8	33	1.81
394535--394786	44	5.7	44	78	2	202	30	22	13	33	1.92
394536--394806	88	3.1	88	81	3	287	31	21	14	32	1.94
394960--395016	17	3.4	17	78	4	53	71	0	17	10	1.12
409856--409996	65	2.2	65	83	5	169	31	24	17	26	1.97
409981--410013	17	1.9	17	100	0	66	24	27	24	24	2.00
415787--415870	23	3.9	23	76	14	72	27	22	21	28	1.99
415749--415846	44	2.3	43	85	8	128	29	21	21	27	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
415774--415852	23	3.5	23	72	16	76	27	24	20	27	1.99
417792--417834	22	2.0	22	85	0	59	30	0	20	48	1.50
418544--418679	65	2.1	64	85	10	188	28	23	18	29	1.98
418557--418699	65	2.2	64	81	9	157	30	22	18	28	1.98
419639--420018	75	5.1	75	86	3	471	40	10	13	34	1.80
419639--420018	148	2.5	149	84	2	467	40	10	13	34	1.80
420479--420972	108	4.5	108	74	8	404	33	13	12	40	1.82
420650--421061	226	1.8	226	86	3	596	32	13	12	41	1.82
421389--421440	26	1.9	28	84	7	72	42	0	3	53	1.19
421386--421447	15	4.4	15	70	15	60	40	0	3	56	1.15
422135--422240	6	17.7	6	89	0	149	20	0	26	52	1.46
425578--425626	15	3.3	15	91	0	80	6	14	61	18	1.53
426953--427064	50	2.2	51	84	7	140	48	8	6	37	1.58
431266--431479	45	4.8	44	84	5	252	31	21	7	39	1.81
431266--431479	92	2.4	88	83	6	268	31	21	7	39	1.81
431561--431641	40	2.0	40	85	0	108	24	24	24	25	2.00
433457--433514	31	1.9	31	89	3	91	36	18	5	39	1.74
434194--434320	51	2.5	50	87	3	168	47	10	8	33	1.68
436198--436344	60	2.5	60	76	8	147	33	20	19	27	1.96
436859--436892	15	2.3	15	89	0	50	17	20	29	32	1.96
437117--437199	41	2.0	41	100	0	166	42	9	24	24	1.84
438424--438506	40	2.1	40	100	0	166	38	7	26	27	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
439296--439404	32	3.5	31	77	8	105	43	31	11	14	1.80
439461--439515	17	3.1	19	73	26	57	52	0	7	40	1.29
441304--441340	7	5.4	7	93	6	67	24	29	29	16	1.96
441330--441386	17	3.4	17	95	0	96	17	21	42	19	1.90
441383--441451	9	7.1	10	77	12	81	28	28	23	18	1.98
441381--441451	19	3.7	19	87	9	99	28	28	25	18	1.98
444306--444523	109	2.0	109	99	0	427	36	23	18	21	1.95
448422--448465	7	6.4	7	94	5	81	25	29	29	15	1.96
448422--448465	20	2.1	21	95	4	81	25	29	29	15	1.96
448455--448512	17	3.4	17	95	0	98	17	24	39	18	1.92
448506--448570	19	3.4	19	91	2	94	27	29	24	18	1.98
448508--448586	10	8.1	10	76	10	83	27	29	22	20	1.98
449630--449718	32	2.8	32	89	3	99	38	17	14	29	1.90
449647--449733	32	2.7	32	91	3	113	37	17	14	29	1.90
451043--451220	60	3.0	60	82	4	198	34	19	5	41	1.75
453891--453954	25	2.6	26	74	18	64	39	1	4	54	1.31
456556--456849	145	2.0	145	97	0	552	34	22	16	26	1.95
457039--457426	59	6.6	59	88	3	579	30	23	11	34	1.91
457020--457426	174	2.3	176	87	5	599	31	23	11	33	1.91
457747--457799	22	2.4	23	81	9	67	26	22	16	33	1.96
457842--457916	19	3.7	20	76	11	73	24	32	17	26	1.97
465367--465412	24	1.9	24	90	0	74	34	23	23	17	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
465403--465496	23	4.1	23	92	0	152	37	26	22	13	1.92
465581--465644	14	4.4	14	71	7	56	40	21	6	31	1.78
465572--465677	44	2.4	44	87	3	142	39	21	5	33	1.77
465684--465719	18	2.0	18	100	0	72	38	16	11	33	1.84
472429--472522	23	4.1	23	84	0	125	34	22	24	19	1.97
476345--476435	45	2.0	46	93	2	157	26	19	26	27	1.99
488347--488378	16	1.9	17	93	6	57	0	21	3	75	0.95
488846--488931	3	28.0	3	88	9	129	65	0	1	33	1.01
489090--489813	116	6.3	116	89	5	1025	28	19	15	36	1.92
489071--489824	339	2.2	341	87	4	1092	28	19	14	37	1.91
490562--490852	84	3.5	82	95	1	512	36	22	13	27	1.92
491647--491686	16	2.5	16	88	8	55	52	7	7	32	1.58
492004--492091	9	10.3	9	69	22	66	3	18	0	78	0.89
492001--492092	35	2.7	34	80	12	109	4	17	0	78	0.91
492001--492091	26	3.6	25	88	4	130	3	17	0	79	0.87
498379--498670	84	3.5	83	95	0	523	36	22	13	27	1.92
499464--499503	16	2.5	16	88	8	55	52	7	7	32	1.58
499818--499909	9	10.5	8	74	23	71	3	15	0	81	0.81
499830--499884	16	3.2	17	85	12	69	5	14	0	80	0.89
499817--499907	16	6.0	15	74	22	66	3	16	0	80	0.85
499818--499912	27	3.6	27	82	12	117	3	15	0	81	0.82
499824--499911	34	2.7	32	83	15	108	3	15	0	80	0.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
503417--503453	18	2.0	19	89	5	58	62	0	13	24	1.31
507190--507228	21	1.9	20	85	15	53	43	2	23	30	1.67
510378--510450	27	2.6	27	75	16	69	63	4	4	28	1.32
512042--512073	16	1.9	17	93	6	57	0	21	3	75	0.95
512559--512647	3	29.7	3	90	0	142	61	0	3	34	1.12
527018--527099	2	41.5	2	92	2	112	47	4	1	46	1.31
528729--528806	40	2.0	40	100	0	156	28	20	12	38	1.89
531844--531950	44	2.4	44	93	0	178	42	13	20	24	1.87
531844--531911	25	3.0	25	61	22	58	42	13	19	25	1.87
531844--531989	44	3.5	40	80	10	123	43	12	19	24	1.85
531958--532019	25	2.5	25	86	5	90	45	11	19	24	1.83
531991--532363	173	2.1	172	86	4	509	42	12	21	23	1.87
531990--532381	44	9.0	44	85	2	506	42	12	21	24	1.87
533685--533838	74	2.1	74	97	0	290	22	14	14	48	1.79
537669--538022	179	2.0	179	98	1	692	34	20	22	23	1.97
539678--539831	78	2.0	78	98	0	299	27	14	19	38	1.90
545032--545080	19	2.5	20	81	18	59	75	6	8	10	1.18
545034--545080	20	2.4	19	86	10	60	76	4	8	10	1.13
545034--545079	21	2.2	20	85	11	58	78	4	8	8	1.09
547297--547354	12	4.5	14	80	19	65	34	3	0	62	1.12
547298--547354	24	2.4	24	93	0	96	33	3	0	63	1.12
547297--547342	3	15.3	3	86	8	67	34	2	0	63	1.07
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
547824--547871	22	2.1	22	84	3	60	58	14	6	20	1.58
551015--551115	49	2.0	50	98	1	195	35	13	20	29	1.92
551280--551318	21	2.0	20	85	10	53	41	12	20	25	1.88
554294--554473	90	2.0	90	100	0	360	34	14	23	27	1.94
555159--555615	99	4.5	102	78	6	392	33	17	10	39	1.83
555557--555757	66	3.0	66	90	2	323	30	18	13	37	1.89
555611--555721	30	3.5	30	67	17	89	30	18	13	37	1.89
555756--556124	138	2.7	138	82	2	458	30	28	16	24	1.96
555756--556167	138	3.0	137	81	3	447	30	28	16	24	1.96
557863--557892	16	1.9	16	93	6	53	23	13	3	60	1.48

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