genome.fa.s8982.2.7.7.80.10.50.1000.3.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: VEPZ01008982.1 Hibiscus syriacus cultivar Beakdansim tig00112344_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2253222

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   

This is table  3  of  12  ( 1401 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)
382232--382298	15	4.5	15	83	3	82	35	19	5	38	1.76
385350--385384	15	2.3	15	90	0	52	31	14	37	17	1.89
385710--385736	2	13.5	2	100	0	54	0	48	0	51	1.00
386847--386903	30	1.9	30	81	0	69	40	5	7	47	1.53
386988--387061	29	2.6	28	79	12	89	37	8	10	43	1.69
390006--390031	13	2.0	13	100	0	52	38	0	7	53	1.30
390755--390815	22	3.0	19	77	15	68	27	1	21	49	1.59
395682--395738	22	2.8	19	78	19	62	29	1	19	49	1.58
396819--396849	16	2.0	16	93	6	55	58	0	9	32	1.31
405027--405056	4	7.5	4	100	0	60	50	23	0	26	1.50
407479--407515	20	1.9	19	89	10	58	45	10	24	18	1.81
408459--408542	2	42.0	2	100	0	168	50	0	0	50	1.00
417464--417511	16	3.1	16	78	3	53	22	2	6	68	1.23
421473--421524	18	2.9	18	94	0	86	25	19	28	26	1.98
423162--423202	18	2.3	18	87	4	57	60	0	9	29	1.28
423787--423834	21	2.3	21	88	0	69	31	27	18	22	1.97
423868--424059	21	9.4	20	70	13	131	20	18	24	36	1.95
423877--424095	42	5.3	42	90	3	338	21	17	23	37	1.94
423877--424095	82	2.6	82	93	1	357	21	17	23	37	1.94
424615--424644	14	2.1	14	100	0	60	13	13	26	46	1.80
424820--425068	21	12.0	21	73	13	194	34	22	20	22	1.96
424823--425043	42	5.3	42	93	1	374	35	23	19	21	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
426456--426518	31	2.0	31	81	6	74	36	0	3	60	1.13
426473--426537	21	3.0	22	82	13	73	41	0	1	56	1.08
426506--426606	41	2.4	41	79	15	109	54	0	0	44	1.06
426530--426600	19	3.6	19	70	17	56	60	1	0	38	1.06
427177--427202	2	13.0	2	100	0	52	50	0	0	50	1.00
427412--427504	21	4.5	21	75	4	91	40	18	23	17	1.90
427412--427504	41	2.3	41	98	0	177	40	18	23	17	1.90
427431--427565	41	3.3	41	82	4	130	39	21	19	20	1.93
427493--427586	20	4.7	20	77	7	82	34	25	15	24	1.95
427774--427817	22	2.0	22	95	0	79	20	45	15	18	1.85
428023--428073	19	2.7	19	100	0	102	41	27	21	9	1.84
429338--429382	18	2.5	18	85	0	63	26	46	15	11	1.79
429908--429965	14	3.9	14	79	16	71	48	25	17	8	1.75
429892--429982	32	2.8	33	94	3	166	47	23	18	10	1.80
429854--429987	19	7.6	19	72	18	92	42	23	20	12	1.87
429999--430056	14	3.9	14	79	16	71	8	17	25	48	1.75
429994--430072	32	2.4	33	95	2	142	10	18	24	46	1.80
430013--430130	20	6.4	19	77	11	95	13	20	24	41	1.88
432103--432237	19	7.6	19	82	14	173	46	17	22	13	1.83
432137--432199	33	1.9	33	96	0	117	50	15	20	12	1.77
432120--432237	33	3.4	33	71	25	109	48	16	21	13	1.81
432120--432237	52	2.3	52	98	0	227	48	16	21	13	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
432256--432307	20	2.6	20	90	0	86	15	23	19	42	1.89
433626--433686	20	3.1	19	75	9	50	45	16	22	14	1.84
433651--433738	33	2.6	33	90	1	131	39	25	23	11	1.88
433721--433810	19	4.7	19	93	2	153	46	22	20	11	1.81
433654--433749	33	2.9	33	87	1	129	40	27	20	11	1.87
433721--433810	39	2.3	38	94	1	153	46	22	20	11	1.81
433806--433886	19	4.5	19	74	16	73	11	17	24	46	1.80
434423--434500	41	1.9	41	89	0	120	23	15	23	38	1.92
434404--434497	20	4.7	20	80	7	91	24	17	25	32	1.96
434423--434518	41	2.3	41	82	3	113	21	18	22	36	1.95
440536--440593	31	1.9	31	82	3	73	50	3	15	31	1.61
440981--441029	20	2.4	21	86	3	64	69	4	2	24	1.17
447712--447766	25	2.2	25	100	0	110	20	20	14	45	1.85
449099--449151	27	2.0	25	89	7	79	54	0	3	41	1.18
453332--453373	19	2.3	19	87	4	59	11	4	16	66	1.40
457596--457708	59	1.9	59	87	3	165	27	14	22	36	1.92
459245--459304	31	1.9	31	83	12	79	18	10	41	30	1.83
461890--461985	10	9.5	10	67	25	51	57	1	0	41	1.06
461879--461988	21	5.4	21	73	16	88	53	0	0	45	1.06
461887--461988	41	2.5	40	87	7	143	55	0	0	43	1.06
461971--462002	15	2.2	14	94	5	55	50	0	0	50	1.00
464272--464327	21	2.7	22	81	10	64	39	3	0	57	1.16
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
465313--465359	23	2.1	23	84	4	60	65	0	2	31	1.04
465316--465352	18	2.1	18	89	0	56	64	0	2	32	1.07
465307--465363	28	2.0	27	83	10	69	64	0	1	33	1.04
468711--468793	40	2.2	38	83	10	107	32	16	6	44	1.72
474129--474222	29	3.2	29	84	3	109	46	22	11	19	1.81
486942--486971	2	15.0	2	100	0	60	50	0	0	50	1.00
489874--489903	2	15.0	2	100	0	60	50	0	0	50	1.00
491070--491117	20	2.5	20	89	3	71	31	25	14	29	1.95
493781--493833	21	2.5	21	81	6	72	20	26	18	33	1.96
493823--493895	21	3.5	21	88	1	85	38	19	21	20	1.94
493881--494018	41	3.4	41	78	2	143	37	23	15	23	1.93
493884--493991	20	5.3	20	75	6	92	35	26	14	23	1.94
493860--493943	21	4.0	22	77	13	79	39	25	19	16	1.92
494185--494228	22	2.0	22	95	0	79	20	45	15	18	1.85
495869--495916	18	2.7	18	93	0	87	27	45	12	14	1.81
496471--496557	19	4.8	19	73	15	67	43	20	20	14	1.87
496499--496560	19	3.5	19	72	20	71	45	22	19	12	1.84
496588--496674	20	4.4	20	88	1	122	14	24	24	36	1.93
496601--496700	20	5.1	19	85	6	83	21	20	25	34	1.97
496601--496694	40	2.4	40	83	5	111	18	21	25	35	1.95
497049--497117	21	3.3	20	74	6	66	24	40	15	18	1.90
497039--497129	41	2.2	42	88	2	139	21	41	15	20	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
498535--498573	14	2.8	14	84	0	51	35	0	17	46	1.49
498752--498801	20	2.5	20	100	0	100	16	22	28	34	1.95
499008--499124	20	5.8	20	85	4	137	29	19	26	24	1.99
499846--499899	24	2.2	24	86	0	72	24	16	18	40	1.90
500073--500097	12	2.1	12	100	0	50	72	0	28	0	0.86
502439--502562	14	7.8	14	68	24	59	45	18	25	11	1.82
502424--502583	33	4.8	33	97	0	275	45	18	24	11	1.83
502583--502645	19	3.3	19	89	6	92	14	15	23	46	1.83
502617--502709	32	2.8	33	83	3	134	16	19	18	46	1.85
502593--502709	19	6.7	19	70	21	69	14	18	19	47	1.83
502816--502852	14	2.6	15	87	12	60	48	21	0	29	1.50
504539--504723	91	2.0	90	89	6	282	47	18	11	22	1.80
506412--506472	20	3.1	19	81	9	77	45	18	22	13	1.83
506461--506530	14	4.6	14	75	16	68	40	24	25	10	1.86
506440--506530	47	1.9	48	93	2	157	39	24	25	10	1.88
506476--506538	33	1.9	33	96	0	117	41	23	23	11	1.87
506477--506547	33	2.2	33	89	0	106	43	23	23	8	1.81
506559--506632	19	4.1	19	70	24	70	10	21	21	45	1.82
507150--507265	20	5.8	20	73	15	89	22	18	20	38	1.93
507256--507311	20	2.7	21	80	5	69	42	16	21	19	1.89
507249--507321	21	3.5	21	79	3	76	36	17	21	23	1.94
507249--507425	82	2.2	82	79	8	191	33	17	22	27	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
514968--515002	3	11.7	3	93	0	61	0	31	2	65	1.07
518111--518162	21	2.5	21	90	0	77	28	32	23	15	1.95
518193--518245	19	2.7	19	70	5	52	20	18	26	33	1.96
518193--518254	21	3.0	21	72	9	74	19	19	27	33	1.96
518394--518535	21	6.8	21	74	13	123	31	24	21	22	1.98
518394--518539	63	2.3	63	96	0	265	32	24	20	22	1.98
519896--519923	11	2.5	11	100	0	56	75	0	7	17	1.03
522401--522446	21	2.2	21	84	7	58	41	15	10	32	1.82
538722--538759	13	2.6	14	84	16	51	50	0	0	50	1.00
538733--538758	13	2.0	13	100	0	52	53	0	0	46	1.00

Tables:   1   2   3   4   5   6   7   8   9   10   11   12