genome.fa.s8015.2.7.7.80.10.50.1000.3.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: VEPZ01008015.1 Hibiscus syriacus cultivar Beakdansim tig00110481_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  961110

Tables:   1   2   3   4   

This is table  3  of  4  ( 458 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)
448612--448653	21	2.0	21	86	9	59	64	2	0	33	1.07
448921--449012	49	1.9	48	95	4	168	42	13	9	34	1.77
450320--450384	17	3.5	17	70	24	51	52	1	0	46	1.10
450564--450595	15	2.0	17	88	11	50	56	0	0	43	0.99
451192--451220	13	2.2	13	100	0	58	6	62	31	0	1.22
451928--452024	3	31.7	3	85	4	131	61	1	0	37	1.03
452157--453026	76	11.5	76	97	0	1645	34	21	21	21	1.97
452157--453026	303	2.9	304	97	0	1654	34	21	21	21	1.97
453029--453348	162	2.0	163	89	4	493	36	12	15	35	1.85
456389--456744	162	2.2	161	92	5	578	37	21	12	28	1.90
456393--456744	83	4.4	78	93	3	551	37	21	12	28	1.90
463660--463700	14	2.8	15	82	14	50	73	0	0	26	0.84
464119--464183	17	3.5	17	70	24	51	52	1	1	44	1.19
464359--464397	18	2.1	18	86	13	53	58	0	0	41	0.98
464996--465024	13	2.2	13	100	0	58	6	62	31	0	1.22
465734--465827	3	30.7	3	87	4	134	62	0	0	37	0.95
471134--471197	32	2.0	32	84	3	85	42	4	0	53	1.22
471205--471521	29	10.3	29	68	15	140	54	1	5	37	1.33
471206--471398	94	2.0	96	81	7	212	54	0	4	40	1.25
471725--471757	16	2.0	17	88	5	50	66	0	0	33	0.92
484156--484230	39	1.9	39	97	0	141	37	16	20	26	1.93
486959--487023	23	2.8	23	100	0	130	33	12	23	30	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
490661--490706	19	2.6	18	83	10	58	39	4	4	52	1.41
494759--494783	6	4.2	6	100	0	50	36	48	16	0	1.46
495385--495436	22	2.4	22	100	0	104	34	28	19	17	1.94
495428--495500	20	3.6	20	74	3	83	41	23	19	16	1.90
495425--495525	41	2.5	41	96	0	184	39	23	16	19	1.92
495403--495529	21	6.1	21	71	6	89	39	25	16	18	1.91
509400--509470	36	2.0	36	94	0	124	39	12	9	38	1.77
509449--509557	40	2.7	40	84	0	146	35	18	13	32	1.90
515560--515625	23	2.9	23	84	4	80	66	1	0	31	1.01
515988--516040	22	2.3	23	80	3	63	37	1	0	60	1.08
516008--516059	25	2.2	23	83	10	61	36	1	0	61	1.07
520877--520907	13	2.4	13	100	0	62	64	29	0	6	1.18
523203--523253	2	25.5	2	100	0	102	49	0	0	50	1.00
524786--524830	24	1.9	23	81	4	54	46	0	4	48	1.22
533462--533503	2	21.0	2	100	0	84	50	0	0	50	1.00
541137--541252	56	2.1	56	93	0	196	37	23	12	27	1.90
541269--541340	31	2.3	31	79	11	76	34	23	13	27	1.93
541577--541615	17	2.2	18	86	13	55	17	5	17	58	1.56
541583--541638	23	2.4	24	79	5	62	21	5	14	58	1.55
544391--544437	24	2.0	23	87	4	67	44	0	0	55	0.99
544408--544489	42	2.0	41	83	11	105	47	0	0	52	1.00
544880--544925	22	2.1	22	83	0	56	28	13	13	45	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
555842--556094	137	1.8	137	88	3	393	44	9	25	20	1.81
560947--561026	34	2.4	32	83	8	88	36	5	28	30	1.78
560947--561026	18	4.7	17	85	3	92	36	5	28	30	1.78
561776--561845	9	7.3	9	73	12	59	15	27	28	28	1.96
561775--561813	20	1.9	21	89	5	62	17	25	25	30	1.97
561796--561843	19	2.5	20	90	6	66	16	25	31	27	1.97
561842--561899	5	10.8	5	78	14	62	20	51	20	6	1.70
561842--561906	22	3.0	22	95	0	121	20	49	21	9	1.76
562789--562912	63	2.0	63	82	9	155	16	27	29	26	1.97
562789--562912	31	4.0	32	72	12	80	16	27	29	26	1.97
563695--563739	21	2.1	21	91	0	72	31	26	24	17	1.97
565437--565503	22	3.0	22	95	2	116	19	26	28	25	1.99
572214--572271	20	2.9	20	84	7	82	20	25	22	31	1.98
572269--572320	19	2.7	19	100	0	104	15	21	30	32	1.94
572234--572289	29	1.9	29	85	0	76	19	25	26	28	1.99
572319--572359	5	7.8	5	84	10	55	19	53	21	4	1.63
572356--572386	7	4.4	7	100	0	62	16	29	29	25	1.96
573256--573379	63	2.0	63	82	9	155	16	27	29	26	1.97
573256--573379	31	4.0	32	72	12	80	16	27	29	26	1.97
576742--576787	6	7.7	6	100	0	92	50	0	50	0	1.00
578279--578524	122	2.0	123	98	1	478	29	13	23	33	1.92
579092--579147	17	3.3	17	97	0	103	17	48	21	12	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
579138--579180	7	6.1	7	94	0	77	16	30	27	25	1.97
585675--585773	10	10.3	9	79	12	90	16	28	27	28	1.97
585676--585773	19	5.1	19	81	14	87	15	28	27	28	1.96
585675--585773	29	3.4	28	87	5	126	16	28	27	28	1.97
585769--585807	17	2.3	17	100	0	78	17	46	23	12	1.83
585797--585826	7	4.3	7	100	0	60	16	26	30	26	1.97
588920--588960	18	2.3	18	86	0	55	19	48	17	14	1.81
588958--588991	15	2.1	17	89	10	54	14	35	23	26	1.94
590282--590317	18	2.0	18	88	0	54	52	0	16	30	1.44
591414--591505	12	7.8	12	71	16	57	19	14	18	47	1.82
591417--591509	47	2.0	48	85	10	129	20	13	17	48	1.81
591414--591509	24	4.0	23	85	8	113	20	13	17	47	1.81
593405--593433	15	1.9	15	100	0	58	27	24	27	20	1.99
599681--599714	18	1.9	18	88	5	52	32	11	20	35	1.89
601128--601174	24	2.0	24	100	0	94	12	29	17	40	1.86
601176--601228	9	5.0	11	70	25	51	37	47	5	9	1.60
601177--601255	21	4.0	19	88	4	88	35	43	11	10	1.75
601176--601243	21	3.2	21	95	0	118	35	47	8	8	1.66
601206--601263	18	3.1	18	77	7	53	34	36	17	12	1.87
601470--601573	33	3.0	34	84	8	147	19	26	37	16	1.92
601470--601577	36	3.1	35	82	8	139	19	27	36	16	1.93
606508--606552	23	2.0	23	86	0	63	48	0	2	48	1.13
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
607668--607697	15	2.1	15	93	6	53	23	20	0	56	1.42
608039--608063	13	1.9	13	100	0	50	24	0	0	76	0.80
610732--611106	187	2.0	188	99	0	743	34	21	18	25	1.96
619812--620129	158	2.0	157	97	2	602	31	15	20	32	1.94
621444--621489	21	2.2	21	84	0	56	28	23	19	28	1.98
621460--621526	21	3.2	21	78	0	71	25	28	17	28	1.98
621917--622048	46	2.9	46	91	4	207	21	4	6	67	1.32
624606--624718	35	3.2	35	87	0	163	30	23	23	21	1.99
632655--632704	26	1.9	26	83	0	64	32	18	14	36	1.90
632798--632848	22	2.3	22	82	0	66	25	45	11	17	1.83
633211--633253	20	2.2	20	95	0	77	44	18	20	16	1.87
633265--633331	20	3.3	20	85	0	89	20	11	22	44	1.84
633253--633329	40	1.9	39	87	7	111	19	11	19	49	1.78
635048--635092	21	2.1	21	91	0	72	20	13	31	35	1.91
635116--635215	21	4.8	21	70	11	71	18	10	36	36	1.84
635116--635210	42	2.3	43	76	9	115	18	8	36	35	1.82
635539--635589	21	2.4	21	86	0	66	25	37	13	23	1.92
636719--636821	20	5.2	20	81	0	107	24	11	14	49	1.76
636725--636849	60	2.1	60	80	3	135	25	11	15	48	1.78
636830--636886	13	4.3	13	93	2	87	29	7	26	36	1.83
636924--637056	66	2.0	66	100	0	266	53	18	10	18	1.72
639498--639546	24	2.0	24	92	0	80	38	16	16	28	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
639503--639554	24	2.2	24	85	0	68	38	19	15	26	1.91
640454--640581	20	6.5	20	71	17	72	37	10	23	28	1.89
640486--640645	40	4.0	40	78	8	155	37	14	21	26	1.92
642928--642987	32	1.9	31	83	6	77	43	5	25	26	1.75
643309--643339	2	15.5	2	100	0	62	48	0	0	51	1.00
647071--647111	18	2.3	18	87	4	57	60	2	7	29	1.36
651932--651969	2	19.0	2	100	0	76	50	0	0	50	1.00
653968--654038	24	2.9	24	80	2	79	30	4	5	59	1.40
663303--663345	11	3.5	11	77	22	50	9	67	16	6	1.40
663314--663361	15	3.2	15	93	0	78	10	66	16	6	1.41

Tables:   1   2   3   4