genome.fa.s8492.2.7.7.80.10.50.1000.3.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: VEPZ01008492.1 Hibiscus syriacus cultivar Beakdansim tig00111334_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1113585

Tables:   1   2   3   4   5   

This is table  3  of  5  ( 597 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)
486182--486247	20	3.3	20	66	29	59	19	22	7	50	1.73
486180--486279	40	2.5	40	100	0	200	21	22	10	47	1.80
486202--486267	20	3.3	20	66	29	59	16	24	10	48	1.78
486069--486391	152	2.1	153	94	0	558	25	20	12	41	1.87
486220--486740	112	4.6	112	95	0	918	28	20	13	38	1.90
486761--486928	76	2.2	76	87	2	239	32	23	19	25	1.98
486946--487247	164	1.8	164	89	1	480	36	14	13	35	1.85
487760--487858	22	4.5	22	92	0	171	38	14	14	33	1.86
488233--488339	54	2.0	54	88	0	160	28	22	14	34	1.93
488293--488381	46	1.9	46	90	0	142	28	22	13	35	1.92
490188--490411	114	2.0	114	90	0	349	31	20	16	32	1.94
492462--492514	16	3.4	16	82	5	65	0	18	0	81	0.70
492462--492516	8	6.5	8	78	17	58	0	18	0	81	0.68
492462--492514	11	4.6	11	76	6	52	0	18	0	81	0.70
495297--495330	6	5.7	6	89	0	50	52	8	14	23	1.69
495273--495330	12	5.2	12	76	16	61	55	10	13	20	1.68
495389--495430	7	6.0	7	78	10	50	57	11	16	14	1.66
497512--497549	2	19.0	2	100	0	76	50	0	0	50	1.00
497743--497795	15	3.5	15	76	7	54	64	3	0	32	1.12
499113--499167	21	2.5	22	88	5	76	69	3	0	27	1.05
499113--499170	18	3.2	18	80	11	73	68	3	0	27	1.05
500837--500914	20	3.8	20	83	6	86	75	0	2	21	0.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
500833--500989	7	22.1	7	66	19	51	67	0	5	26	1.16
500848--500912	22	3.0	22	84	6	80	78	0	3	18	0.88
500925--500986	20	3.1	19	81	11	70	62	1	3	32	1.20
500989--501126	5	27.6	5	100	0	276	40	0	19	39	1.52
504239--504607	131	2.8	130	85	4	474	40	17	11	31	1.84
505251--505348	51	1.9	51	82	0	124	58	11	12	18	1.63
508003--508037	17	2.1	17	88	0	52	77	0	2	20	0.90
508095--508514	36	11.4	35	71	18	147	44	5	3	46	1.43
508149--508205	12	4.3	12	77	18	51	47	5	5	42	1.48
508134--508193	29	2.0	30	90	3	95	45	5	5	45	1.47
508345--508516	43	4.3	43	72	20	165	44	5	2	47	1.40
508497--508548	2	26.5	2	96	3	97	48	0	0	51	1.00
508279--508506	79	3.1	75	87	8	333	44	5	3	46	1.44
509211--510253	84	12.4	84	78	4	1005	26	19	23	31	1.98
509211--510253	168	6.2	168	87	1	1473	26	19	23	31	1.98
509211--510510	504	2.6	503	84	5	1511	25	19	23	31	1.98
510110--510396	143	2.0	143	89	0	439	26	19	21	32	1.97
510272--510510	84	2.8	84	77	5	248	25	20	22	31	1.98
510253--510532	85	3.3	85	77	5	325	25	19	22	32	1.97
511674--511867	95	2.0	95	85	2	255	32	17	17	33	1.92
514901--515006	37	2.9	37	85	0	149	38	16	15	29	1.89
515505--515565	22	2.8	22	71	14	54	27	1	3	67	1.16
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
515869--515926	18	3.2	18	75	18	57	18	5	0	75	0.98
515894--515946	26	2.0	26	85	0	70	15	7	0	77	0.98
516862--516905	16	2.8	16	85	0	52	11	9	2	77	1.08
520269--520330	16	3.8	17	76	20	60	79	8	12	0	0.94
521784--523137	106	13.0	106	85	5	1793	34	24	17	23	1.96
522491--522637	43	3.2	43	66	17	116	34	25	17	23	1.96
521784--523138	311	4.3	315	87	6	1854	34	24	17	23	1.96
521784--523138	615	2.2	617	87	5	1946	34	24	17	23	1.96
523865--523968	37	2.8	37	86	1	147	39	15	15	29	1.88
524479--524510	2	16.5	2	93	6	57	46	0	0	53	1.00
524472--524508	12	3.4	11	92	7	58	45	0	0	54	1.00
524765--524799	2	18.0	2	94	5	63	51	0	0	48	1.00
524767--524796	15	2.0	15	100	0	60	53	0	0	46	1.00
524765--524798	17	2.0	17	100	0	68	52	0	0	47	1.00
524765--524806	21	2.0	21	95	0	75	50	0	0	50	1.00
524835--524866	10	3.2	10	90	0	55	18	3	0	78	0.89
524834--524894	16	3.7	15	75	14	50	16	8	0	75	1.03
524834--524886	26	2.0	26	82	7	63	16	7	0	75	1.02
525933--525963	2	15.5	2	93	0	53	54	0	0	45	0.99
526044--526072	15	1.9	15	100	0	58	75	0	3	20	0.94
526037--526118	15	5.2	15	68	21	53	78	2	4	14	1.03
527260--527296	15	2.6	14	87	8	56	75	0	2	21	0.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
527420--527601	36	5.2	36	74	19	165	41	7	4	46	1.53
527422--527640	36	6.1	37	72	20	155	42	6	4	46	1.51
527496--527561	27	2.3	29	89	7	100	42	6	4	46	1.48
527494--527562	29	2.3	31	80	16	92	43	5	4	46	1.47
527405--527633	102	2.2	102	81	10	263	42	6	4	45	1.51
527364--527633	103	2.6	102	77	12	270	41	6	4	47	1.49
527772--528318	270	2.0	275	97	2	1032	20	16	34	27	1.95
528375--528411	4	9.2	4	100	0	74	75	0	0	24	0.80
528407--528466	3	20.3	3	93	3	104	66	1	0	31	1.01
533151--533246	44	2.1	44	84	5	120	42	5	13	38	1.67
534789--534838	2	25.0	2	95	0	91	48	0	2	50	1.12
539627--539657	8	3.9	8	100	0	62	38	25	9	25	1.86
539654--539688	8	4.4	8	96	0	61	54	25	0	20	1.45
539630--539681	16	3.2	16	83	0	50	44	25	5	25	1.76
553884--553978	28	3.4	28	78	11	88	65	4	11	18	1.41
553887--553978	29	3.2	28	77	9	80	65	4	10	19	1.41
553977--554020	23	2.0	21	86	8	61	56	13	2	27	1.49
562681--562709	13	2.1	14	93	6	51	82	0	3	13	0.79
562675--562714	19	2.1	19	85	0	53	80	0	7	12	0.91
564632--564721	46	2.0	46	88	0	135	23	21	12	43	1.86
564923--565466	82	6.6	82	86	1	723	28	22	12	36	1.91
564824--565466	164	4.0	163	85	4	795	28	22	12	36	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
564824--565466	246	2.6	244	82	7	738	28	22	12	36	1.90
565550--565715	54	3.1	54	84	1	181	36	16	15	31	1.91
569902--570118	70	2.9	70	76	15	220	28	21	13	35	1.92
569985--570184	82	2.5	82	84	4	271	28	23	13	36	1.92
570259--570448	54	3.5	54	84	2	213	34	20	14	30	1.92
575773--575828	20	2.7	21	91	8	96	66	5	21	7	1.37
613529--613601	31	2.3	31	81	6	85	19	9	28	42	1.82
615155--615195	17	2.5	17	96	4	75	53	14	9	21	1.70
618981--619046	20	3.1	22	85	10	61	31	6	6	56	1.48
618981--619037	20	2.9	20	92	2	89	33	5	7	54	1.50
619632--619742	33	3.4	33	76	3	100	34	4	10	50	1.58
619894--620047	33	4.8	31	73	7	112	35	2	11	50	1.52
619811--620056	98	2.5	98	86	1	296	36	4	11	47	1.58
619829--620056	33	7.0	33	70	5	104	36	3	11	48	1.56
619882--620054	33	5.3	31	72	7	105	38	2	11	47	1.52
621309--621414	35	3.1	34	90	4	169	48	9	0	42	1.35
621321--621428	35	3.2	33	82	12	123	47	8	0	44	1.33
623461--623508	23	2.0	26	88	12	75	33	2	6	58	1.35
627344--627402	21	2.7	21	92	5	91	52	5	23	18	1.65
628375--628399	5	5.0	5	100	0	50	20	20	40	20	1.92
628582--628608	6	4.5	6	100	0	54	48	33	0	18	1.49
630373--630413	20	2.0	20	95	0	73	24	7	43	24	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
633617--633656	16	2.4	17	83	4	55	22	2	25	50	1.62
633786--633828	17	2.7	16	89	7	61	30	9	18	41	1.82
634275--634337	24	2.6	24	85	5	92	17	23	26	31	1.97
639640--639681	22	2.0	22	86	13	61	19	33	30	16	1.94
640104--640143	16	2.4	17	83	4	55	22	2	25	50	1.62
643876--643939	3	22.0	3	78	12	71	28	3	1	67	1.15
643874--643937	32	2.0	32	90	6	103	26	4	3	65	1.27
645050--645096	20	2.4	19	80	16	51	25	2	14	57	1.49
647787--647847	30	2.0	32	93	6	108	14	14	9	60	1.58
650910--651018	22	4.7	22	71	17	87	70	11	14	3	1.29

Tables:   1   2   3   4   5