genome.fa.s8111.2.7.7.80.10.50.1000.3.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: VEPZ01008111.1 Hibiscus syriacus cultivar Beakdansim tig00110647_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1666726

Tables:   1   2   3   4   5   6   7   8   9   

This is table  3  of  9  ( 1021 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)
446935--446988	27	2.0	28	89	10	85	46	3	7	42	1.49
446952--447131	37	4.8	37	82	9	206	42	2	10	45	1.52
449195--449219	12	2.1	12	100	0	50	32	24	12	32	1.91
449332--449372	18	2.3	18	86	0	55	4	29	24	41	1.75
450954--451015	23	2.9	21	72	9	61	12	22	35	29	1.91
457910--457965	5	10.8	5	79	11	60	19	5	0	75	1.00
457899--457957	27	2.2	28	81	9	77	22	6	0	71	1.09
458397--458438	19	2.2	19	91	0	66	38	11	26	23	1.90
460298--460357	30	2.0	30	96	0	111	41	16	31	10	1.81
463377--463451	21	3.5	21	72	16	73	56	0	2	41	1.13
463612--463691	23	3.5	23	84	3	99	56	2	1	40	1.21
464069--464126	29	2.1	27	83	6	71	39	29	5	25	1.77
464706--464768	22	2.9	22	90	4	101	19	31	30	19	1.96
466652--466703	16	3.1	16	88	8	68	38	0	1	59	1.08
466652--466710	18	3.4	17	84	11	75	35	1	1	61	1.16
466709--466741	17	1.9	17	100	0	66	21	6	6	66	1.35
473484--473534	23	2.3	23	80	6	61	21	41	19	17	1.91
483455--483486	13	2.4	14	94	5	57	56	0	0	43	0.99
484770--484815	3	15.7	3	78	13	51	63	0	0	36	0.95
484770--484815	14	3.4	14	90	3	67	63	0	0	36	0.95
486430--486473	23	2.0	22	95	4	79	20	9	13	56	1.64
486984--487037	18	3.2	16	80	19	65	35	0	3	61	1.14
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
487042--487074	17	1.9	17	100	0	66	21	6	6	66	1.35
490065--490105	21	2.0	21	90	0	64	41	9	0	48	1.36
491681--491738	27	2.1	27	81	6	64	37	8	5	48	1.56
499897--499953	20	2.8	20	83	0	78	26	26	14	33	1.94
513461--513547	20	4.2	20	76	11	86	29	14	11	43	1.81
514423--514452	12	2.5	12	100	0	60	36	46	0	16	1.47
517561--517640	33	2.4	32	75	17	83	36	35	10	18	1.85
518745--518784	19	2.1	19	90	0	62	30	2	2	65	1.19
520325--520374	3	16.7	3	82	15	59	68	2	0	30	1.01
520325--520375	21	2.5	20	84	15	68	66	1	0	31	1.03
520325--520374	24	2.1	24	92	0	82	68	2	0	30	1.01
525983--526012	12	2.6	11	90	10	51	63	0	0	36	0.95
527590--527629	19	2.1	19	85	4	53	47	5	7	40	1.54
528595--528659	31	2.1	32	91	2	105	36	1	6	55	1.34
529352--529502	80	1.9	80	92	0	257	47	13	19	19	1.82
535819--535862	16	2.7	16	96	3	79	52	0	9	38	1.33
535964--536025	26	2.4	26	91	0	106	38	27	12	20	1.90
537442--537484	20	2.4	19	82	17	56	25	20	11	41	1.86
537448--537492	20	2.4	19	85	10	65	24	24	8	42	1.83
543238--543614	197	1.9	197	91	0	610	39	12	16	31	1.86
547862--547930	29	2.4	29	83	13	90	34	20	4	40	1.72
548256--548863	226	2.7	226	87	2	848	33	13	12	40	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
549349--549392	21	2.1	21	87	4	63	54	0	6	38	1.27
549624--549673	23	2.2	23	92	0	82	38	8	22	32	1.83
552403--552947	201	2.7	198	85	3	693	33	14	15	36	1.88
552808--553765	200	4.8	200	89	2	1370	28	14	15	41	1.86
553979--554025	24	2.0	24	86	0	67	48	17	2	31	1.58
556586--556671	30	2.8	30	85	3	118	27	3	46	22	1.68
556600--556669	15	4.7	15	80	7	88	27	2	48	21	1.64
557018--558515	199	7.5	199	88	0	2167	28	14	14	41	1.86
558886--558935	19	2.6	19	93	0	82	60	10	0	30	1.30
560836--560876	9	4.6	9	87	0	55	4	53	7	34	1.50
561107--561162	24	2.5	21	76	20	60	48	8	1	41	1.45
562424--562485	19	3.3	19	95	0	106	35	14	0	50	1.43
562868--563529	182	3.6	181	83	2	785	28	13	11	46	1.78
563454--563494	20	2.0	21	90	9	66	21	12	12	53	1.70
567410--567436	12	2.2	12	100	0	54	22	0	0	77	0.76
568555--568601	22	2.2	22	84	3	60	19	12	0	68	1.21
569199--569254	23	2.4	23	90	0	85	28	23	8	39	1.85
571539--571621	43	1.9	43	87	0	121	30	27	18	24	1.98
571582--572112	240	2.2	245	86	6	736	32	24	18	25	1.97
571993--572229	124	1.9	124	91	1	386	33	24	15	26	1.95
572234--572967	84	8.7	83	85	2	901	31	24	19	24	1.98
572234--572933	252	2.8	251	89	1	1015	31	24	19	24	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
575220--575273	28	1.9	28	85	7	74	22	0	1	75	0.89
575220--575304	28	3.1	26	79	12	73	22	3	1	72	1.06
575264--575318	25	2.1	27	83	12	71	21	10	0	67	1.21
575377--575403	6	4.5	6	100	0	54	44	0	0	55	0.99
581181--581224	3	15.0	3	85	4	63	61	0	2	36	1.09
581404--581605	52	3.8	53	88	3	264	27	15	23	32	1.95
581404--581603	105	1.9	106	85	5	280	28	16	23	32	1.96
581510--581906	137	2.9	136	83	2	483	23	16	26	32	1.96
582206--582766	292	1.9	292	88	2	849	32	16	14	36	1.89
586242--586280	19	2.1	19	100	0	78	12	30	20	35	1.90
586244--586289	19	2.4	19	92	0	74	10	32	17	39	1.84
588549--588589	3	14.0	3	84	5	57	60	0	2	36	1.10
590048--590267	44	5.1	44	75	12	145	50	5	19	24	1.69
590048--590396	130	2.7	127	78	9	312	50	6	18	25	1.69
590048--590413	43	8.5	44	72	10	202	49	6	18	25	1.71
590318--590413	45	2.2	44	83	7	115	50	7	14	28	1.70
593352--593378	12	2.2	12	100	0	54	22	22	7	48	1.75
598205--598422	107	2.1	105	91	3	348	43	8	14	33	1.75
600835--600912	34	2.3	35	84	6	106	28	17	15	38	1.91
601086--601141	21	2.6	22	81	16	64	32	3	1	62	1.23
602776--602808	2	16.5	2	100	0	66	48	0	0	51	1.00
604783--604812	14	2.1	14	100	0	60	6	0	43	50	1.28
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
605052--605101	22	2.3	22	89	0	73	30	22	22	26	1.99
613967--614002	15	2.3	15	90	4	54	16	11	0	72	1.12
616541--616619	21	3.7	21	79	17	76	22	34	20	22	1.97
619770--619809	21	1.9	21	89	0	62	30	10	7	52	1.62
620034--620111	21	3.7	21	87	1	102	21	41	14	23	1.89
620054--620153	21	4.8	20	80	12	76	23	37	18	22	1.94
626478--626519	2	21.5	2	95	4	77	52	0	0	47	1.00
626386--626596	107	2.0	102	81	13	243	46	2	5	44	1.41
626530--626588	27	2.1	27	84	3	73	47	3	3	45	1.36
626502--626685	77	2.4	75	91	3	296	46	1	6	45	1.38
626648--626713	26	2.5	26	97	0	123	43	0	9	46	1.35
629493--629528	18	2.0	19	89	10	58	38	2	0	58	1.13
635051--635092	20	2.1	20	82	8	50	76	0	4	19	0.96
636396--636479	43	2.0	42	86	6	118	50	3	3	42	1.37
636496--636569	31	2.3	34	81	13	93	41	9	4	44	1.55
636486--636569	32	2.6	32	81	11	91	42	8	4	44	1.55
636567--636616	26	2.0	25	84	11	66	46	2	6	46	1.39
636457--636689	117	2.0	119	95	4	427	43	6	5	44	1.53
636589--636679	35	2.6	34	77	10	87	43	6	4	45	1.50
636571--636757	33	5.4	34	76	13	145	44	6	4	44	1.50
637372--638179	165	4.9	165	80	6	783	23	21	25	29	1.99
637372--638179	85	9.7	85	81	5	843	23	21	25	29	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
637402--638179	250	3.1	250	85	2	951	23	21	26	29	1.99
637372--638179	334	2.4	331	85	3	1029	23	21	25	29	1.99
641554--641598	19	2.4	19	85	3	65	64	11	13	11	1.50
644612--644662	27	1.9	27	84	11	70	52	5	1	39	1.37
644624--644812	36	5.1	36	71	13	141	46	6	4	43	1.48
644634--644716	41	2.0	41	86	6	114	51	3	3	40	1.37
644624--644803	38	4.8	37	74	14	145	46	6	4	43	1.48
644762--644864	27	3.9	25	73	16	84	44	5	3	45	1.46
644798--644827	15	1.9	16	93	6	53	53	6	0	40	1.27
644690--644940	126	2.0	125	97	2	477	43	6	4	45	1.50

Tables:   1   2   3   4   5   6   7   8   9