genome.fa.s8953.2.7.7.80.10.50.1000.3.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: VEPZ01008953.1 Hibiscus syriacus cultivar Beakdansim tig00112281_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2822058

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   

This is table  3  of  15  ( 1787 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)
375818--375921	47	2.2	49	84	3	140	66	4	22	6	1.35
376747--376784	16	2.5	15	87	8	51	26	2	13	57	1.49
379792--379857	12	5.6	12	83	3	80	10	16	46	25	1.79
382189--382565	189	2.0	192	87	4	557	28	14	17	38	1.89
383499--383614	36	3.1	36	83	7	115	38	19	20	20	1.93
383544--383617	36	2.1	36	92	0	121	41	18	18	20	1.90
392999--393084	32	2.7	32	80	3	93	29	18	16	36	1.93
394262--394302	21	2.0	21	90	4	66	29	21	9	39	1.86
401826--401871	23	2.0	23	91	0	74	17	23	26	32	1.97
402111--402157	21	2.2	21	77	7	51	48	0	19	31	1.49
404199--404229	16	1.9	16	93	0	53	32	19	16	32	1.94
406332--406388	18	3.0	18	80	14	78	28	12	10	49	1.73
406332--406388	21	3.0	20	82	12	75	28	12	10	49	1.73
406690--406759	16	3.8	18	79	12	72	31	21	17	30	1.96
406689--406759	35	2.0	36	88	2	108	30	21	16	30	1.95
406690--406759	20	3.8	19	77	12	74	31	21	17	30	1.96
407111--407183	34	2.1	34	84	0	92	35	15	27	21	1.93
410984--411022	20	2.0	20	100	0	78	25	20	20	33	1.97
417887--417937	26	2.0	26	88	0	75	17	17	29	35	1.93
417991--418522	106	5.0	106	87	3	714	24	17	22	35	1.95
429706--429736	2	16.0	2	93	6	55	51	0	0	48	1.00
429920--429954	13	2.8	12	87	8	52	77	2	0	20	0.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
437080--437116	17	2.2	17	90	0	56	40	0	8	51	1.32
437687--437715	14	2.0	15	93	6	51	62	0	3	34	1.12
443879--443957	32	2.5	31	81	2	95	32	15	13	37	1.87
444483--444516	12	3.0	12	91	8	54	35	23	17	23	1.95
452288--452346	23	2.5	22	76	15	57	50	1	3	44	1.28
454897--455236	131	2.6	131	83	4	421	24	17	32	25	1.97
455261--455584	66	4.8	67	82	6	377	39	14	18	27	1.90
464881--465292	207	2.0	206	96	0	752	27	28	14	29	1.95
468565--468639	25	3.0	25	74	20	68	53	1	0	45	1.08
468608--468762	42	3.9	41	76	10	137	52	0	1	45	1.13
468512--468726	11	17.9	12	65	19	67	49	1	1	47	1.21
468697--468755	14	4.4	14	73	16	52	55	0	0	44	0.99
468850--468897	21	2.3	21	85	7	62	52	0	2	45	1.12
472309--472360	21	2.5	21	87	0	77	32	9	17	40	1.82
472795--473358	54	10.4	54	88	2	783	33	20	17	28	1.96
478976--479526	54	10.3	54	86	2	700	35	19	17	28	1.94
478980--479512	265	2.0	268	87	3	770	35	19	16	28	1.93
481092--481134	22	2.0	23	86	9	63	34	20	32	11	1.89
481097--481148	20	2.5	22	81	6	63	34	19	30	15	1.93
484267--484304	16	2.4	16	86	4	51	28	2	0	68	1.03
485182--485223	17	2.6	16	81	7	50	35	0	0	64	0.94
489010--489038	2	14.5	2	100	0	58	51	0	0	48	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
489226--489286	25	2.4	25	77	22	65	77	4	14	3	1.07
489242--489271	11	2.7	11	89	0	51	76	3	13	6	1.11
489215--489286	14	5.2	13	72	21	58	77	4	15	2	1.03
489217--489297	30	2.7	31	79	9	80	75	4	17	2	1.09
489269--489333	23	2.8	24	88	6	71	73	4	18	3	1.13
489276--489333	23	2.4	23	94	5	98	72	5	18	3	1.18
489276--489338	24	2.6	25	87	10	94	71	6	19	3	1.21
490184--490271	32	2.8	32	87	0	104	30	15	21	31	1.95
491185--491501	85	3.7	85	85	1	395	35	20	17	25	1.95
491185--491496	169	1.8	170	85	2	439	35	20	17	25	1.95
492954--492993	18	2.2	19	86	4	55	37	0	0	62	0.95
495487--495917	41	10.4	41	75	10	360	28	20	17	32	1.96
495569--495916	83	4.2	83	91	1	511	26	21	17	34	1.95
499389--499695	43	7.2	43	77	10	238	23	20	20	34	1.96
499404--499667	85	3.1	82	80	8	280	23	21	20	34	1.97
500521--501146	313	2.0	313	98	0	1209	35	26	12	25	1.91
501571--501720	77	1.9	77	100	0	300	29	18	22	30	1.97
502222--502379	21	7.8	20	70	7	77	37	24	17	19	1.93
502347--502535	58	3.2	60	79	6	224	34	25	20	19	1.96
502387--502533	38	3.8	39	84	6	183	32	25	20	21	1.97
502347--502535	20	9.6	20	78	10	192	34	25	20	19	1.96
502679--502731	21	2.5	22	78	9	65	22	41	16	18	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
502913--502981	33	2.2	31	89	5	102	10	23	18	47	1.79
503101--503155	14	3.6	14	73	21	56	41	23	25	9	1.83
503080--503171	33	2.8	33	88	0	112	42	23	23	9	1.84
503189--503278	14	5.7	14	72	23	72	7	26	22	43	1.80
503172--503286	33	3.5	33	90	0	194	8	25	20	46	1.79
503167--503279	19	6.8	17	70	23	73	8	25	21	44	1.81
504970--505337	90	4.1	93	95	4	664	22	13	18	46	1.83
504970--505339	181	2.0	182	96	2	692	22	12	18	46	1.83
505381--505507	19	7.3	19	73	18	107	44	29	17	8	1.78
505417--505507	33	2.8	31	88	8	137	45	28	18	7	1.77
505503--505637	19	7.6	19	75	16	128	11	19	23	45	1.82
505525--505581	14	3.7	14	77	20	60	10	21	22	45	1.82
505508--505600	33	2.8	33	95	0	168	10	20	21	47	1.80
507516--507551	14	2.6	14	95	0	63	33	0	22	44	1.53
507657--507739	19	4.6	19	80	17	113	43	18	24	14	1.87
507768--508149	19	21.4	19	83	13	517	14	21	17	46	1.83
507746--508149	90	4.6	91	85	11	508	14	22	17	46	1.84
507768--508121	109	3.3	109	96	2	646	14	22	16	46	1.83
510607--510652	23	2.0	23	86	4	65	39	21	13	26	1.90
511326--511714	20	19.5	20	84	6	448	20	18	25	35	1.95
513733--513772	5	7.8	5	88	5	62	77	5	0	17	0.94
513733--513772	16	2.6	15	92	4	62	77	5	0	17	0.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
513733--513772	21	2.0	21	90	5	64	77	5	0	17	0.94
513895--513943	20	2.5	20	80	12	64	36	6	8	48	1.58
516912--517109	30	6.8	28	73	10	110	37	8	2	52	1.44
516922--517109	59	3.2	59	80	3	220	37	7	1	53	1.40
517333--517463	65	2.0	65	96	0	244	23	19	12	43	1.86
518870--518917	21	2.3	21	100	0	96	31	29	8	31	1.87
531635--531675	18	2.3	19	83	8	50	56	4	4	34	1.42
547161--547224	5	12.8	5	96	0	101	15	39	40	4	1.68
561762--561824	33	1.9	33	87	6	92	44	23	15	15	1.86
562673--562711	21	1.9	19	85	10	51	43	28	10	17	1.82
563643--563695	3	17.7	3	81	14	65	30	0	1	67	1.01
563649--563696	12	3.8	13	86	8	73	29	0	2	68	1.01
564365--564424	25	2.6	23	82	10	77	20	3	1	75	1.04
568485--569729	124	9.9	124	84	5	1374	32	24	16	26	1.96
568740--568786	21	2.4	19	86	10	60	25	14	14	44	1.84
568749--568791	21	2.0	21	95	0	77	30	16	18	34	1.93
568625--568910	145	2.0	145	91	0	464	32	21	16	29	1.95
568770--569729	494	1.9	494	90	1	1514	33	24	16	26	1.96
569680--569761	32	2.6	32	92	0	128	31	28	17	23	1.96
569556--569877	156	2.1	156	91	1	520	31	27	15	25	1.96
570138--570185	3	16.3	3	80	20	57	29	0	0	70	0.87
570138--570186	13	3.8	13	82	17	59	28	0	0	71	0.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
574750--574813	26	2.5	26	89	0	92	35	4	17	42	1.70
574748--574838	26	3.2	31	70	20	90	34	4	19	41	1.72
575780--575864	31	2.7	30	73	20	84	63	3	0	32	1.11
576306--576411	38	2.8	38	83	0	122	41	13	16	28	1.86
581105--581204	41	2.5	41	76	11	98	34	20	16	30	1.94
585026--585077	26	2.0	25	92	3	86	15	21	23	40	1.91
585083--585180	43	2.3	43	85	3	135	25	22	19	32	1.97
585103--585192	43	2.1	43	85	4	119	24	21	20	34	1.96
586887--587252	195	1.9	193	98	1	714	41	16	11	30	1.84
588017--588065	25	2.0	25	95	0	89	36	12	6	44	1.67

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15