genome.fa.s1991.2.7.7.80.10.50.1000.3.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: VEPZ01001991.1 Hibiscus syriacus cultivar Beakdansim tig00004072_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2373627

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

This is table  3  of  13  ( 1445 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)
382877--382999	42	2.9	41	79	7	104	23	17	36	22	1.94
385026--385124	33	3.0	33	89	1	144	39	26	23	11	1.88
385001--385166	20	9.1	19	73	16	127	43	21	22	12	1.86
385162--385206	19	2.4	19	92	0	72	8	15	26	48	1.74
385752--385845	20	4.7	20	80	2	89	23	18	24	34	1.96
385773--385907	41	3.3	41	81	4	130	20	21	20	37	1.94
385834--385926	20	4.6	20	78	4	96	18	24	18	38	1.92
385834--385929	41	2.3	41	98	0	183	18	23	17	39	1.92
394126--394334	104	2.0	104	90	3	332	36	11	3	47	1.58
396565--396685	63	1.9	63	84	3	163	39	9	13	38	1.76
396570--396708	31	4.4	32	77	3	113	41	9	12	37	1.75
403129--403177	19	2.5	19	83	3	53	30	30	24	14	1.94
403837--403863	10	2.7	10	100	0	54	40	29	0	29	1.57
404762--404787	13	2.0	13	100	0	52	46	30	7	15	1.74
428006--428132	50	2.5	50	81	6	148	16	33	29	20	1.95
428255--428294	10	4.0	10	84	12	55	32	27	0	40	1.57
428259--428300	20	2.1	20	90	0	66	28	23	0	47	1.52
428421--428640	112	2.0	111	93	0	377	35	7	11	45	1.69
430149--430183	18	1.9	18	94	0	61	37	22	14	25	1.92
430523--430561	12	3.2	12	77	0	51	30	25	35	7	1.84
431908--431949	21	2.0	21	95	0	75	30	28	2	38	1.70
434453--434567	51	2.3	51	84	6	144	20	29	32	17	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
434764--434800	17	2.2	17	90	0	56	56	0	2	40	1.13
438157--438194	19	1.9	20	89	10	60	47	0	0	52	1.00
438158--438204	19	2.6	18	77	12	51	46	0	0	53	1.00
441104--441145	21	2.0	21	86	9	59	71	4	2	21	1.16
445717--445777	23	2.7	23	84	0	86	32	24	26	16	1.96
449683--449724	16	2.6	16	88	11	68	26	16	38	19	1.92
452237--452327	45	2.0	45	93	0	155	34	20	15	29	1.94
463412--463442	15	2.1	15	93	0	53	61	0	0	38	0.96
465867--465914	23	2.3	21	86	13	64	31	27	16	25	1.97
471294--471325	2	16.0	2	100	0	64	50	0	0	50	1.00
478346--478410	19	3.3	19	73	12	58	49	3	3	44	1.33
478417--478449	15	2.4	14	90	10	50	57	6	0	36	1.23
479540--479571	2	16.0	2	100	0	64	50	0	0	50	1.00
483348--483475	48	2.6	49	87	2	195	35	10	21	31	1.88
487440--487490	2	25.5	2	100	0	102	50	0	0	49	1.00
488400--488449	19	2.6	19	87	0	64	18	36	26	20	1.95
488444--488495	18	2.9	18	82	5	61	15	48	23	13	1.80
488445--488495	17	2.9	18	82	5	59	15	47	23	13	1.82
488497--488575	29	2.7	29	82	5	88	27	5	21	45	1.73
490326--490367	21	2.0	21	90	0	66	30	14	33	21	1.93
490903--490956	21	2.6	21	84	0	72	31	14	22	31	1.94
491490--491569	14	6.0	14	75	11	60	12	10	16	61	1.57
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
491504--491559	24	2.3	24	84	0	76	10	8	17	62	1.52
491635--491667	16	2.0	17	88	5	50	51	15	0	33	1.43
491759--491786	10	2.8	10	100	0	56	7	10	21	60	1.53
491751--491827	24	3.2	24	81	0	91	12	10	15	61	1.57
492891--492924	7	4.7	7	96	3	59	52	17	0	29	1.45
493565--493599	7	5.0	7	92	0	52	0	22	42	34	1.54
495520--495560	2	20.5	2	100	0	82	48	0	0	51	1.00
506498--506596	45	2.2	45	82	7	112	30	13	18	38	1.88
513321--513477	64	2.5	64	80	8	185	26	19	19	34	1.96
517488--517568	31	2.6	31	80	7	94	51	6	9	32	1.60
526964--527039	7	10.7	7	75	9	57	51	1	0	47	1.09
527168--527251	23	3.3	27	68	20	81	46	1	1	51	1.16
527169--527227	20	3.0	20	76	14	68	47	0	1	50	1.11
527175--527269	48	2.0	46	91	4	154	45	2	0	52	1.12
527237--527328	33	2.9	31	77	16	93	47	3	0	48	1.17
527495--527534	14	2.7	15	88	11	64	55	0	0	45	0.99
528351--528463	60	1.9	60	83	0	145	42	2	18	36	1.65
528703--528732	15	2.0	15	93	0	51	50	0	0	50	1.00
528900--528945	21	2.2	21	96	3	85	30	17	13	39	1.87
529698--529738	21	2.0	21	95	0	73	24	26	24	24	2.00
533061--533158	21	4.6	21	94	1	169	33	9	14	42	1.77
537400--537652	31	8.2	31	94	1	436	33	16	12	37	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
538245--538348	45	2.3	45	86	6	140	28	17	20	33	1.95
538886--538919	15	2.3	15	89	0	50	52	0	47	0	1.00
538897--538922	9	2.9	9	100	0	52	57	0	42	0	0.98
545600--545626	14	1.9	14	100	0	54	22	22	7	48	1.75
551092--551167	38	2.1	38	83	14	97	55	7	5	31	1.51
551606--551648	18	2.5	17	85	7	61	67	2	4	25	1.22
552006--552110	37	2.8	37	85	0	138	29	14	14	41	1.85
552650--553063	105	4.0	103	86	6	531	21	19	26	33	1.97
553263--553338	36	2.1	36	90	0	116	40	15	21	22	1.90
553238--553556	105	3.1	104	92	2	518	36	11	20	30	1.89
553459--553533	39	1.9	39	83	5	98	37	13	22	26	1.91
554936--555472	183	2.9	183	94	0	941	30	20	20	27	1.98
556548--556579	14	2.3	14	100	0	64	28	18	37	15	1.92
559904--559994	45	2.0	45	81	6	105	60	1	6	31	1.29
560021--560063	18	2.5	17	85	7	61	67	2	4	25	1.22
560421--560522	37	2.8	37	84	0	123	30	13	13	42	1.83
563319--563502	43	4.2	44	77	5	169	33	24	12	29	1.92
565230--565276	24	2.0	24	88	8	71	34	23	0	42	1.54
575060--575847	393	2.0	393	99	0	1549	28	22	17	32	1.96
584017--584080	26	2.4	25	78	14	67	57	1	0	40	1.08
585474--585511	17	2.2	17	90	0	58	68	0	0	31	0.90
585474--585510	14	2.9	14	84	15	53	70	0	0	29	0.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
585879--586332	123	3.7	123	90	0	687	25	20	14	39	1.90
586378--586548	76	2.3	74	89	2	261	30	21	19	28	1.97
587214--587315	22	4.6	22	90	4	118	39	12	10	37	1.79
587231--587316	22	3.9	22	92	3	129	37	12	10	39	1.78
589912--589971	22	2.7	22	92	0	93	30	30	21	18	1.97
596756--596812	18	2.9	18	82	10	60	24	33	22	19	1.97
596775--596827	22	2.4	22	93	0	88	24	30	28	16	1.97
602462--602545	42	2.0	42	83	0	105	19	17	13	50	1.78
604423--604479	26	2.1	28	87	6	82	63	3	3	29	1.28
604433--604490	28	2.2	26	84	12	73	62	3	5	29	1.33
604984--605027	18	2.4	18	81	11	54	47	2	0	50	1.13
604997--605043	23	2.0	23	83	4	58	46	2	2	48	1.25
606621--606673	3	18.0	3	77	11	56	67	0	0	32	0.91
606621--606673	11	4.5	13	73	22	62	67	0	0	32	0.91
606621--606673	17	3.2	16	81	7	70	67	0	0	32	0.91
609567--609611	19	2.4	19	100	0	90	31	37	11	20	1.87
616199--616230	8	4.0	8	91	0	55	12	21	25	40	1.88
616199--616229	16	1.9	16	100	0	62	12	19	25	41	1.87
616817--616862	13	3.5	13	84	3	56	45	0	2	52	1.13
617051--617101	25	2.0	26	84	3	68	41	9	19	29	1.84
618100--618138	17	2.2	18	86	4	53	61	2	5	30	1.31
620635--620702	30	2.3	30	84	0	82	35	14	23	26	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
622339--622366	14	2.0	14	100	0	56	14	14	21	50	1.78
630687--630827	35	4.0	35	91	5	239	36	19	23	19	1.95
630681--630821	71	2.0	71	95	0	255	39	19	22	19	1.93
633997--634069	36	2.0	36	82	10	87	49	5	1	43	1.34
637119--637167	17	2.9	18	82	11	59	40	2	2	55	1.23
638628--638665	20	2.0	21	85	15	55	36	0	2	60	1.11
638626--638665	22	1.9	22	85	10	57	37	0	2	60	1.11
638610--638671	28	2.3	28	84	13	78	35	0	1	62	1.05
647544--647596	27	2.0	27	100	0	106	22	22	24	30	1.99
647829--647871	20	2.2	20	86	0	59	37	20	11	30	1.89

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