genome.fa.s7957.2.7.7.80.10.50.1000.3.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: VEPZ01007957.1 Hibiscus syriacus cultivar Beakdansim tig00110384_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  8646418

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   36   37   38   39   40   41   42   43   

This is table  3  of  43  ( 5063 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)
454947--455077	4	30.8	4	75	14	111	67	2	4	25	1.21
454955--455077	23	5.5	23	80	10	130	67	2	4	25	1.23
467056--467119	29	2.2	29	94	0	110	32	17	18	31	1.94
467535--467580	22	2.0	23	83	8	58	58	2	0	39	1.10
468601--468677	32	2.5	31	82	6	93	50	1	2	45	1.23
470472--470513	22	2.1	19	86	13	57	28	0	0	71	0.86
474446--474474	12	2.3	13	94	5	51	6	0	3	89	0.57
480086--480550	134	3.5	133	83	2	581	32	22	17	27	1.96
480680--480754	3	25.7	3	76	10	66	33	2	2	61	1.24
483451--483518	23	2.9	22	78	12	64	27	4	0	67	1.09
483483--483520	20	1.9	20	89	10	60	31	0	0	68	0.90
483510--483550	2	21.0	2	83	14	50	43	4	0	51	1.23
483655--483711	18	3.2	18	78	7	55	22	3	0	73	0.98
483692--483716	13	1.9	13	100	0	50	12	8	0	80	0.92
483924--483949	10	2.6	10	100	0	52	19	0	0	80	0.71
485574--485648	3	26.0	3	92	8	129	65	0	0	34	0.93
485909--486035	55	2.3	55	88	0	182	28	19	18	33	1.96
486171--486541	36	10.2	35	80	7	325	23	21	18	36	1.95
486167--486541	73	5.2	73	80	3	409	24	21	18	36	1.95
486859--487014	39	4.1	38	82	2	168	37	13	19	29	1.90
486859--487014	77	2.0	77	83	0	195	37	13	19	29	1.90
487359--487390	16	2.0	16	93	0	55	65	0	0	34	0.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
488035--488076	22	1.9	22	85	9	59	4	19	11	64	1.44
488464--488533	3	24.0	3	91	5	117	64	0	1	34	1.03
488788--488926	55	2.5	55	89	0	206	28	18	19	33	1.95
489058--489428	36	10.2	35	81	7	327	24	21	18	35	1.95
489054--489428	73	5.2	73	80	6	413	24	21	18	36	1.95
489709--489900	77	2.5	76	82	4	226	36	15	19	28	1.92
489718--489900	38	4.8	38	83	4	199	33	15	20	29	1.94
490252--490283	16	2.0	16	93	0	55	65	0	0	34	0.93
491389--491433	3	16.0	3	82	13	60	62	0	2	35	1.08
491389--491433	16	3.0	14	87	12	63	62	0	2	35	1.08
491688--491826	55	2.5	55	89	0	206	28	18	19	33	1.95
491958--492328	36	10.2	35	81	7	352	23	21	19	35	1.96
491954--492328	73	5.2	73	81	3	436	24	21	19	35	1.96
492647--492802	39	4.0	39	83	1	188	35	14	19	29	1.92
492646--492801	77	2.0	77	86	0	213	36	14	19	28	1.92
497076--497128	14	3.8	14	75	9	54	54	3	16	24	1.59
499519--499600	20	3.9	20	75	17	67	26	29	21	21	1.99
499974--500012	18	2.2	18	86	4	53	17	2	12	66	1.35
510982--511047	14	4.8	13	80	9	69	21	22	13	42	1.88
513198--513272	32	2.3	32	81	0	96	21	28	28	22	1.99
528301--528513	107	2.0	107	85	4	288	41	22	7	28	1.82
528595--528685	39	2.3	39	84	0	119	35	23	23	18	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
532079--532111	2	16.5	2	87	12	50	48	3	0	48	1.17
532371--532582	106	2.0	106	88	0	316	38	24	9	27	1.87
532625--532740	39	3.0	39	88	5	180	29	25	30	14	1.95
544459--544491	2	16.5	2	87	12	50	48	3	0	48	1.17
544970--545085	39	3.0	39	88	5	180	29	25	30	14	1.95
556882--557089	106	2.0	105	85	3	287	37	25	10	26	1.87
557132--557286	39	4.0	39	93	3	251	29	26	30	14	1.95
563671--563977	153	2.0	154	98	0	598	32	20	19	28	1.97
576175--576240	29	2.2	28	79	10	69	39	6	25	28	1.80
586195--586252	19	2.8	20	79	10	73	24	32	25	17	1.96
588462--588510	18	2.7	18	87	0	80	30	0	38	30	1.58
594788--594848	23	2.7	23	84	5	70	45	14	9	29	1.77
597898--597922	7	3.6	7	100	0	50	68	0	0	32	0.90
597955--598002	18	2.5	20	80	10	55	27	6	2	64	1.28
602758--602811	27	2.0	27	96	3	101	70	11	14	3	1.29
602765--602853	23	3.6	24	79	15	94	76	3	17	2	1.03
604705--604986	93	3.0	93	92	1	467	29	15	20	34	1.94
607662--607741	22	3.6	22	89	0	115	33	15	11	40	1.82
608141--610724	113	23.0	113	91	1	3571	38	13	17	30	1.89
610643--610966	124	2.7	123	85	5	401	39	14	20	25	1.90
610899--611243	139	2.5	139	86	3	446	41	13	17	26	1.87
612801--613162	138	2.6	138	92	1	593	38	6	8	45	1.62
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
617475--617531	28	2.0	28	90	6	89	29	15	21	33	1.94
619311--619442	71	1.9	71	88	3	203	49	6	12	32	1.64
619591--619632	13	3.3	13	80	3	50	47	4	9	38	1.57
619616--619710	20	5.5	17	75	23	69	45	6	2	46	1.40
619646--619712	20	3.4	19	84	14	82	46	5	1	46	1.36
619635--619713	19	4.3	19	82	7	92	45	5	1	48	1.32
620588--620627	14	2.9	14	92	0	62	30	27	12	30	1.93
623803--623847	19	2.2	21	80	15	58	42	6	4	46	1.50
623811--623853	19	2.2	20	91	4	70	41	6	2	48	1.43
624608--624648	19	2.2	19	86	0	55	43	7	2	46	1.44
624729--624757	13	2.3	13	94	5	51	51	0	6	41	1.28
625231--625281	20	2.5	20	82	17	61	47	11	0	41	1.40
625627--625671	13	3.4	13	80	17	56	46	0	8	44	1.34
626497--626548	26	2.0	26	85	7	70	30	1	3	63	1.23
631929--632042	58	2.0	58	84	6	151	34	12	14	38	1.84
637546--637594	22	2.2	22	82	7	64	20	22	34	22	1.97
637546--637596	23	2.3	22	86	3	66	21	21	33	23	1.97
637546--637605	22	2.7	23	82	5	61	20	23	30	26	1.98
641411--641450	21	1.9	21	85	10	55	35	10	2	52	1.48
646703--647089	167	2.3	170	90	4	629	37	27	8	27	1.85
653957--654009	21	2.5	21	100	0	106	33	13	20	32	1.91
657055--657088	16	2.1	17	88	5	52	35	0	0	64	0.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
660613--660687	35	2.1	35	92	0	123	44	22	0	33	1.53
660683--660758	35	2.2	35	85	0	107	40	0	15	43	1.47
667971--668008	2	19.0	2	100	0	76	0	0	50	50	1.00
678778--678820	16	2.7	16	92	0	68	18	34	13	32	1.90
679079--679150	23	3.1	23	96	4	128	47	0	2	50	1.15
679105--679148	14	3.5	14	71	28	53	40	0	4	54	1.21
681483--681545	15	5.1	12	72	24	51	46	1	0	52	1.10
681488--681550	6	11.3	6	70	26	50	47	1	0	50	1.10
681492--681550	21	2.8	22	85	12	79	47	1	0	50	1.11
681499--681579	15	5.0	16	74	16	78	45	1	2	50	1.22
681565--681758	31	6.0	30	73	21	153	49	3	5	42	1.40
681572--681618	24	1.9	25	82	4	60	55	4	2	38	1.31
681628--681689	14	4.4	14	74	11	54	43	1	8	46	1.42
681655--681743	15	5.6	15	69	19	56	49	2	4	43	1.35
681650--681742	34	3.0	29	71	24	80	48	2	5	44	1.37
681523--681783	131	2.0	131	84	8	345	47	3	5	44	1.42
681596--681783	65	2.9	64	80	11	220	47	3	6	43	1.45
681874--681911	15	2.5	15	87	12	51	42	2	5	50	1.39
681874--681911	17	2.3	16	86	13	51	42	2	5	50	1.39
681833--681955	59	2.0	61	83	6	153	42	6	8	43	1.60
682168--682207	20	2.0	20	90	0	62	40	7	7	45	1.61
682452--682572	2	62.0	2	66	22	53	44	5	1	47	1.36
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
682510--682566	15	3.8	15	84	6	62	45	3	1	49	1.29
682517--682572	15	3.9	14	81	9	51	44	3	1	50	1.29
682491--682569	17	4.9	16	73	16	65	45	3	1	49	1.28
682836--682879	21	2.1	22	91	8	74	43	15	0	40	1.47
682954--682985	15	2.1	15	94	0	55	40	3	6	50	1.43
683026--683094	2	35.5	2	80	11	81	47	0	1	50	1.09
684197--684233	2	18.5	2	100	0	74	51	0	0	48	1.00
684233--684259	2	13.5	2	100	0	54	51	0	48	0	1.00
686295--686363	31	2.2	31	97	0	129	36	14	30	18	1.91
690601--690650	24	2.0	25	85	11	68	66	2	0	32	1.03

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   36   37   38   39   40   41   42   43