genome.fa.s8439.2.7.7.80.10.50.1000.2.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: VEPZ01008439.1 Hibiscus syriacus cultivar Beakdansim tig00111238_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2703160

Tables:   1   2   3   4   5   6   7   8   9   

This is table  2  of  9  ( 1013 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)
321550--321863	155	2.0	156	98	1	612	35	14	31	19	1.91
323607--323631	13	1.9	13	100	0	50	8	16	24	52	1.70
323763--323828	21	3.2	21	69	16	57	34	4	12	48	1.61
331365--331512	75	2.0	75	93	2	253	24	20	12	42	1.87
344159--344190	15	2.1	15	94	0	55	9	0	31	59	1.29
354839--355092	138	1.8	138	88	1	384	38	19	21	20	1.93
368923--368969	17	2.7	17	81	12	60	72	0	12	14	1.13
368996--369080	39	2.2	39	79	8	93	70	2	4	22	1.17
369075--369175	51	2.0	51	82	7	125	66	0	4	28	1.12
369109--369212	47	2.3	45	85	5	136	61	0	4	32	1.23
369112--369221	46	2.5	46	85	7	138	60	1	5	31	1.30
369242--369310	2	35.0	2	81	8	79	47	1	5	44	1.35
369247--369333	14	6.1	14	77	12	70	54	0	4	41	1.21
369275--369325	25	2.0	27	84	7	70	58	0	3	37	1.16
369328--369366	20	2.0	20	85	10	53	69	0	7	23	1.14
370740--370941	110	1.8	109	91	1	332	21	18	24	35	1.95
375225--375308	23	3.7	23	80	0	105	29	26	22	21	1.99
376287--376329	21	2.0	21	91	8	70	32	18	25	23	1.97
378948--378990	21	2.0	21	91	8	70	32	18	25	23	1.97
388046--388070	13	1.9	13	100	0	50	80	0	8	12	0.92
388051--388107	16	3.2	18	73	12	55	73	0	3	22	0.98
388083--388173	10	9.3	10	77	7	62	59	1	3	36	1.21
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
388119--388156	2	19.5	2	94	5	69	50	0	0	50	1.00
388224--388270	2	24.0	2	81	12	53	51	2	4	42	1.33
388231--388293	14	4.2	14	75	18	56	58	0	3	38	1.14
388235--388285	25	2.0	27	84	7	70	58	0	3	37	1.16
388231--388329	23	4.3	23	73	16	64	62	0	5	32	1.17
388268--388333	21	3.0	21	77	16	64	69	0	4	25	1.07
388367--388402	13	2.9	13	88	12	58	55	0	19	25	1.43
400825--400863	19	2.1	19	95	0	69	38	20	23	17	1.93
400906--400959	16	3.4	16	94	0	90	44	18	12	24	1.85
403724--403753	9	3.3	9	100	0	60	43	20	23	13	1.86
415698--415736	19	2.1	19	95	0	69	38	20	23	17	1.93
415779--415832	16	3.4	16	94	0	90	44	18	12	24	1.85
418598--418627	9	3.3	9	100	0	60	43	20	23	13	1.86
434619--434648	16	1.9	16	93	6	53	60	0	3	36	1.14
440522--440557	14	2.4	16	81	18	58	33	8	19	38	1.82
440527--440558	14	2.3	14	100	0	64	34	6	18	40	1.76
440221--442219	820	2.4	820	90	1	3138	39	12	21	26	1.89
450722--450768	21	2.2	21	96	0	85	23	25	12	38	1.90
450619--450847	19	11.6	20	79	8	159	32	24	13	28	1.93
451141--451190	25	2.0	25	96	0	91	44	22	8	26	1.80
451283--451356	20	3.7	20	83	0	103	40	21	17	20	1.91
451263--451355	40	2.3	40	84	0	123	40	21	15	22	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
454031--454084	24	2.2	24	93	0	90	40	20	18	20	1.91
454031--454098	24	2.8	24	84	0	64	38	20	17	23	1.93
454210--454243	12	2.8	12	90	0	50	14	0	29	55	1.40
455007--455078	20	3.6	20	82	14	94	18	18	22	41	1.90
455101--455154	20	2.7	20	77	11	74	25	14	31	27	1.95
458635--458679	2	22.5	2	100	0	90	48	0	0	51	1.00
463798--463834	17	2.2	17	100	0	74	5	0	64	29	1.15
473984--474074	20	4.5	20	74	8	76	31	23	19	25	1.98
474394--474430	19	1.9	19	94	0	65	29	24	5	40	1.77
475792--475867	36	2.1	36	97	0	143	31	10	14	43	1.79
479138--479179	22	2.0	22	95	4	77	54	0	7	38	1.28
479565--479679	60	1.9	60	90	0	185	32	12	21	33	1.90
489815--489843	5	5.8	5	100	0	58	37	0	0	62	0.96
489955--489980	7	3.7	7	100	0	52	11	26	30	30	1.92
497090--497221	66	2.0	66	98	0	255	29	15	21	33	1.94
500768--500792	12	2.1	12	100	0	50	24	16	20	40	1.91
514801--514831	16	1.9	16	93	0	53	22	41	6	29	1.78
519697--519722	4	6.5	4	100	0	52	26	0	0	73	0.84
528379--528436	29	2.0	29	86	3	80	18	8	13	58	1.61
528531--528555	12	2.1	12	100	0	50	68	0	0	32	0.90
536346--536391	19	2.3	22	75	21	55	39	2	2	56	1.24
539803--539960	21	7.8	20	72	7	86	38	24	17	18	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
539928--540156	20	11.4	20	81	5	230	37	25	17	19	1.94
540849--540895	24	2.0	24	87	8	69	25	14	21	38	1.92
541070--541094	12	2.1	12	100	0	50	72	0	28	0	0.86
543393--543600	53	3.8	53	91	7	321	45	17	22	14	1.84
543393--543582	19	10.4	19	84	13	274	46	17	21	14	1.83
543379--543582	72	2.9	70	86	11	233	46	17	21	14	1.83
543591--543726	53	2.6	52	96	2	254	14	23	17	44	1.86
543591--543726	19	7.6	19	78	17	166	14	23	17	44	1.86
543833--543869	14	2.6	14	91	0	65	45	21	0	32	1.52
545227--545399	19	9.6	19	78	12	159	46	23	19	10	1.81
545299--545394	33	2.9	33	93	0	165	47	21	19	10	1.79
545261--545399	52	2.7	52	74	8	147	46	23	20	9	1.79
545395--545450	14	3.6	14	74	21	58	7	16	28	48	1.72
545406--545467	19	3.6	18	72	20	60	8	19	27	45	1.78
545395--545499	33	3.2	33	89	4	149	9	18	26	45	1.79
545425--545481	14	3.7	14	72	20	51	8	22	24	43	1.81
545597--545912	93	3.4	93	99	0	623	45	18	13	22	1.85
547597--547693	20	5.2	20	72	18	100	46	17	24	11	1.81
547595--547659	21	3.1	21	82	4	96	47	15	26	10	1.78
547644--547700	14	3.7	14	75	20	60	43	22	24	8	1.81
547595--547717	33	3.5	33	90	8	165	46	18	24	10	1.81
547851--547921	33	2.2	33	94	0	124	47	16	23	11	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
548301--548492	20	9.6	20	86	4	253	19	19	27	33	1.96
549151--549196	18	2.7	17	90	6	67	34	6	30	28	1.82
549726--549776	5	10.4	5	81	10	52	23	54	15	5	1.63
549840--549907	26	2.6	26	92	2	118	38	23	14	23	1.92
560784--560809	6	4.3	6	100	0	52	80	0	0	19	0.71
560892--561110	109	2.0	109	97	0	411	34	10	8	47	1.68
582167--582213	24	1.9	25	82	4	60	44	4	4	46	1.42
584135--584174	21	1.9	21	85	10	55	25	15	0	60	1.35
585590--585642	21	2.5	22	88	8	76	33	24	32	9	1.87
586559--586605	18	2.6	17	87	9	67	36	0	0	63	0.94
586568--586618	25	2.0	25	81	7	59	37	0	0	62	0.95
591834--591885	24	2.2	24	100	0	104	55	3	26	13	1.55
594532--594598	27	2.5	27	100	0	134	53	17	2	25	1.58
601910--601941	16	1.9	17	93	6	57	34	0	3	62	1.11
602587--602700	47	2.4	46	88	5	158	30	5	4	59	1.39
605899--605972	36	2.0	37	82	7	89	51	5	0	43	1.24
613203--613246	23	1.9	23	85	0	61	56	11	15	15	1.66
614379--614525	60	2.5	60	82	4	154	34	14	17	34	1.90
619464--619526	31	2.0	31	90	0	99	42	15	17	23	1.88
621427--621452	7	3.7	7	100	0	52	69	0	30	0	0.89
630112--630167	27	2.1	27	96	0	103	58	0	0	41	0.98
630122--630179	27	2.1	27	87	0	80	60	0	3	36	1.14
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
630934--630962	2	14.5	2	100	0	58	48	0	0	51	1.00
641369--641398	14	2.1	14	100	0	60	40	0	0	60	0.97
641801--641828	2	14.0	2	100	0	56	50	0	0	50	1.00
654094--654124	2	15.5	2	100	0	62	51	0	0	48	1.00
655021--655059	20	2.0	20	89	0	60	33	10	23	33	1.88
679372--679417	23	2.0	24	82	4	58	39	6	13	41	1.70
679525--679554	2	15.5	2	93	6	53	50	0	0	50	1.00
680638--680880	57	4.3	57	88	2	362	26	14	22	36	1.93
680850--680900	20	2.5	20	83	0	66	31	11	23	33	1.91
680796--681209	77	5.4	77	92	0	639	27	14	21	35	1.93

Tables:   1   2   3   4   5   6   7   8   9