genome.fa.s8654.2.7.7.80.10.50.1000.3.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: VEPZ01008654.1 Hibiscus syriacus cultivar Beakdansim tig00111648_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3533819

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   

This is table  3  of  18  ( 2052 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)
387854--387931	19	4.7	16	78	18	56	47	19	20	12	1.82
387864--387931	19	3.8	19	81	14	92	48	17	20	13	1.80
387950--388010	20	3.0	20	97	0	113	16	24	22	36	1.94
388231--388291	19	3.5	19	72	21	69	45	18	21	14	1.84
388231--388303	33	2.2	33	90	0	110	47	19	19	13	1.82
388303--388426	33	3.7	33	87	1	158	14	23	16	45	1.85
389199--389252	24	2.2	24	86	0	72	25	16	18	38	1.92
391741--391867	33	3.8	33	87	4	193	43	19	22	14	1.88
391741--391871	19	7.7	19	66	23	85	43	19	22	14	1.87
391742--391874	66	2.0	66	95	0	239	42	19	21	16	1.89
391882--391938	14	3.7	14	75	20	60	8	24	22	43	1.81
391867--391956	33	2.7	33	94	0	153	13	22	21	43	1.87
391896--391956	19	3.5	19	72	21	69	11	22	21	44	1.84
392063--392099	14	2.6	14	91	0	65	45	24	0	29	1.53
393421--393543	42	2.9	40	80	9	111	22	17	35	23	1.95
393824--394040	95	2.3	94	90	4	346	47	18	13	20	1.82
395751--395838	33	2.6	33	96	1	158	38	22	27	11	1.88
395726--395871	19	8.1	19	71	17	105	42	19	24	13	1.87
395867--395911	19	2.4	19	84	0	63	6	15	26	51	1.68
396463--396516	20	2.7	20	91	0	81	29	20	25	24	1.99
396485--396579	41	2.3	41	80	3	102	21	20	23	35	1.96
402318--402394	3	25.3	3	86	2	73	44	0	0	55	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
402847--402891	22	2.0	22	87	8	65	77	2	20	0	0.87
402855--402894	15	2.6	15	92	4	62	77	0	22	0	0.77
415187--415225	18	2.2	17	86	4	51	82	2	15	0	0.79
415197--415230	15	2.4	14	90	9	52	82	0	17	0	0.67
415175--415230	15	4.0	13	78	19	51	80	1	14	3	0.93
416369--417010	83	7.7	83	91	3	1004	28	13	22	35	1.92
416369--417010	169	3.8	167	94	2	1033	28	13	22	35	1.92
416369--417010	248	2.6	248	92	2	1034	28	13	22	35	1.92
417741--419089	113	12.0	113	94	1	2063	36	14	18	30	1.91
418563--418626	20	3.2	20	64	24	53	51	6	23	18	1.69
418676--418739	20	3.2	20	64	24	53	51	6	23	18	1.69
419017--419072	17	3.2	17	68	26	53	48	8	25	17	1.76
419310--419392	3	27.3	3	87	7	78	42	0	0	57	0.98
419856--419900	22	2.0	22	87	8	65	77	2	20	0	0.87
419864--419903	15	2.6	15	92	4	62	77	0	22	0	0.77
420768--420819	23	2.4	22	81	12	63	48	0	0	51	1.00
425524--425565	23	1.9	21	85	9	57	54	2	0	42	1.13
425611--425654	19	2.2	20	84	8	54	61	2	0	36	1.09
432505--432551	22	2.1	22	100	0	94	29	40	4	25	1.75
437930--437955	6	4.3	6	100	0	52	69	15	0	15	1.20
438001--438041	2	20.5	2	100	0	82	51	0	0	48	1.00
438148--438202	2	28.0	2	90	3	85	50	1	0	47	1.11
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
438326--438360	18	1.9	18	88	0	52	80	0	2	17	0.84
438339--438364	10	2.6	10	100	0	52	76	0	0	23	0.78
445571--445641	3	23.7	3	91	0	115	35	2	0	61	1.10
447044--447083	12	3.1	13	82	10	55	40	0	0	60	0.97
447753--447799	18	2.7	18	77	9	53	25	0	2	72	0.96
458756--458921	54	3.1	54	91	0	269	37	16	23	22	1.93
459282--459358	22	3.5	22	85	3	109	33	15	14	36	1.88
459953--459997	24	1.9	23	82	13	56	51	6	24	17	1.70
459834--460691	113	7.6	113	82	7	945	38	13	18	29	1.89
459834--460569	222	3.3	223	90	4	1104	38	13	18	30	1.89
460491--460779	123	2.4	123	86	6	387	41	14	18	25	1.88
461956--461985	14	2.1	15	93	6	53	40	0	0	60	0.97
461984--462066	3	27.7	3	92	0	130	61	0	2	36	1.09
462383--463021	116	5.6	116	90	2	890	30	20	12	36	1.89
463685--464098	83	5.0	83	94	0	677	37	21	12	28	1.89
465257--465308	7	6.9	7	75	16	50	0	15	0	84	0.62
465253--465314	17	3.8	17	85	8	92	0	16	0	83	0.64
465256--465309	15	3.5	15	89	5	72	0	14	0	85	0.61
470924--471666	83	8.9	83	92	2	1179	37	21	12	27	1.90
470918--471666	250	3.0	250	92	1	1227	37	21	12	27	1.91
470929--471666	333	2.2	333	100	0	1476	37	21	12	28	1.90
472830--472880	7	6.9	7	78	12	57	0	15	0	84	0.63
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
472826--472886	17	3.8	17	80	12	83	0	16	0	83	0.64
472826--472886	24	2.5	24	84	7	88	0	16	0	83	0.64
478474--479223	250	3.0	250	92	1	1208	37	21	12	27	1.90
478474--479223	333	2.3	333	98	0	1443	37	21	12	27	1.90
478474--479241	83	9.3	83	91	1	1150	37	21	12	28	1.90
480383--480433	7	7.9	7	78	12	56	0	13	0	86	0.58
480379--480439	15	3.8	17	76	12	74	0	14	0	85	0.60
480379--480439	24	2.5	24	89	0	95	0	14	0	85	0.60
480380--480419	1	40.0	1	84	0	53	0	7	0	92	0.38
494919--494981	22	2.8	22	87	2	81	11	28	15	44	1.81
494941--494982	22	1.9	22	100	0	84	9	28	16	45	1.79
497640--497709	3	23.3	3	100	0	140	67	0	32	0	0.91
498299--498345	18	2.5	19	76	13	53	40	0	8	51	1.33
498268--498338	29	2.5	28	78	15	74	38	1	5	54	1.33
505752--507558	202	8.6	206	91	3	2146	37	15	12	34	1.85
506567--507558	220	4.5	220	95	0	1727	36	16	12	33	1.87
513807--514002	59	3.3	59	97	0	374	34	13	13	38	1.83
514235--514386	59	2.6	58	88	5	225	38	12	15	34	1.85
516624--516694	37	1.9	36	91	2	115	33	26	9	29	1.89
517832--517866	4	8.8	4	100	0	70	74	0	0	25	0.82
517888--517923	15	2.3	15	90	4	54	75	0	11	13	1.06
517898--518063	52	3.2	52	77	16	143	72	1	4	21	1.10
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
517918--518126	44	4.9	43	70	19	134	68	1	3	26	1.15
517922--518167	85	2.8	83	76	10	217	67	2	3	26	1.20
518683--518830	37	4.0	37	88	0	208	33	12	12	41	1.80
521072--521167	2	52.5	2	73	17	84	50	1	2	46	1.20
521072--521167	9	10.5	10	76	17	84	50	1	2	46	1.20
522255--522574	156	2.1	156	99	0	631	28	8	5	57	1.51
522612--522687	29	2.7	26	81	15	82	28	10	0	60	1.30
540171--540216	15	2.7	18	72	27	55	4	28	6	60	1.40
544814--544854	20	2.0	20	100	0	82	29	17	14	39	1.89
545147--545181	18	1.9	18	94	0	61	31	2	40	25	1.70
552188--552268	29	2.7	30	71	3	83	38	19	2	39	1.65
559875--559903	2	14.5	2	100	0	58	48	0	0	51	1.00
561675--561725	25	2.0	25	88	0	75	43	9	13	33	1.77
563391--563422	15	2.1	15	94	0	55	53	15	25	6	1.65
569617--569716	46	2.2	46	85	0	137	41	23	15	21	1.90
570130--570159	13	2.3	13	94	0	51	56	3	3	36	1.32
576388--576428	18	2.3	18	91	4	66	63	2	4	29	1.28
578455--578518	3	21.3	3	75	12	60	25	4	37	32	1.77
582794--582861	28	2.5	28	83	7	86	33	16	16	33	1.91
585493--585523	16	1.9	16	93	0	53	61	22	9	6	1.50
585594--585651	16	3.6	16	92	0	98	60	22	8	8	1.53
585811--585841	16	1.9	16	93	0	53	48	25	12	12	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
585850--585914	24	2.7	25	74	11	73	32	20	18	29	1.96
585849--585928	23	3.4	23	78	11	83	28	18	20	32	1.96
587013--587133	45	2.7	45	97	0	224	33	16	19	31	1.94
586949--587071	64	1.9	64	81	6	151	30	15	22	30	1.95
589738--589834	44	2.2	44	80	7	108	26	18	26	27	1.98
595604--595782	64	2.8	62	80	8	189	29	17	24	27	1.98
596640--596696	14	4.4	14	78	17	59	56	24	12	7	1.61
596634--596695	24	2.6	24	86	0	88	56	24	11	8	1.61
624959--625019	17	3.5	17	72	10	52	4	26	0	68	1.09
633215--633249	18	1.9	18	88	0	52	77	2	2	17	1.02

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18