genome.fa.s9573.2.7.7.80.10.50.1000.3.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: VEPZ01009573.1 Hibiscus syriacus cultivar Beakdansim tig00116938_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1247605

Tables:   1   2   3   4   5   6   

This is table  3  of  6  ( 707 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)
435903--436036	2	67.0	2	86	8	193	49	0	2	47	1.19
435885--436036	10	15.7	9	81	6	52	47	0	2	49	1.20
436118--436811	216	3.2	216	92	1	1164	28	12	8	51	1.68
443303--443338	17	2.1	18	89	5	56	61	0	2	36	1.11
444717--444771	25	2.2	26	86	3	76	45	12	5	36	1.66
447468--447507	20	2.0	20	95	0	71	10	17	0	72	1.11
459316--459346	16	1.9	16	100	0	62	58	22	12	6	1.58
459412--459486	10	7.7	10	69	21	61	57	21	12	9	1.62
459416--459480	16	4.1	16	95	0	121	56	23	12	7	1.61
460193--460225	14	2.4	14	94	0	57	54	27	12	6	1.60
469961--470017	21	2.6	23	75	16	57	45	8	0	45	1.34
469974--470018	21	2.1	21	87	0	63	42	8	0	48	1.34
481857--481976	42	2.9	42	87	2	152	28	12	38	20	1.89
486796--486835	21	1.9	21	85	10	55	27	15	27	30	1.96
489334--489385	24	2.2	23	82	3	59	48	19	23	9	1.78
493445--493499	26	2.1	26	93	6	94	29	7	5	58	1.48
502697--502832	60	2.3	60	83	5	168	36	4	26	33	1.76
502971--503003	16	2.2	15	89	10	50	36	21	9	33	1.85
506595--506633	13	2.9	13	88	11	53	61	2	0	35	1.10
506595--506634	7	6.2	6	86	13	53	62	2	0	35	1.09
506626--506664	3	12.3	3	84	10	51	61	2	2	33	1.23
506842--507348	132	3.8	132	81	4	493	30	17	21	30	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
520809--520869	23	2.7	23	86	0	86	31	24	27	16	1.96
522426--522483	20	2.7	20	86	10	71	27	22	18	31	1.97
525606--525645	21	1.9	21	84	0	53	27	15	22	35	1.94
528209--528255	24	2.0	24	86	0	67	17	10	19	53	1.72
529306--529354	24	2.1	23	85	7	64	65	8	6	20	1.41
530602--530644	16	2.7	16	96	0	77	41	9	23	25	1.84
531883--531909	13	2.1	13	100	0	54	51	0	0	48	1.00
536433--536504	32	2.3	32	85	4	94	50	2	1	45	1.25
541936--541979	11	3.8	11	77	11	52	27	22	25	25	2.00
543379--543501	35	3.5	35	85	7	162	20	0	30	48	1.55
543408--543514	28	3.9	28	88	2	128	20	0	29	49	1.49
543379--543508	7	18.7	7	79	1	109	20	0	30	48	1.55
544956--544989	16	2.1	16	88	0	50	50	0	2	47	1.16
545031--545064	16	2.0	18	88	11	54	26	2	5	64	1.30
545536--545783	130	1.9	130	91	0	406	35	12	14	36	1.85
546179--546254	35	2.2	35	92	0	125	35	1	23	39	1.63
548605--548656	16	3.4	16	80	12	56	57	0	0	42	0.98
549528--549561	16	2.1	16	94	0	59	44	2	0	52	1.16
550538--550585	20	2.6	19	87	9	64	29	14	25	31	1.95
554832--554898	21	3.1	21	79	16	84	53	2	0	43	1.16
554837--554904	20	3.3	20	80	9	84	51	1	1	45	1.19
560381--560466	29	3.0	29	85	0	109	19	39	29	11	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
562525--562550	13	2.0	13	100	0	52	61	15	7	15	1.55
567623--567850	45	5.0	45	84	3	305	39	14	21	24	1.90
568234--568302	30	2.2	30	85	15	95	34	5	17	42	1.73
568243--568302	30	2.0	30	93	6	104	33	6	16	43	1.74
568481--568534	20	2.7	20	88	0	72	20	31	16	31	1.95
568644--568683	20	1.9	22	90	10	66	37	40	10	12	1.77
568898--568967	34	2.1	32	84	5	86	31	15	28	24	1.96
571600--571668	30	2.2	30	85	15	95	36	5	15	42	1.72
571609--571668	30	2.0	30	93	6	104	35	6	15	43	1.72
571749--571804	21	2.7	21	97	0	103	21	33	19	25	1.97
571860--571954	40	2.4	40	92	0	154	16	31	20	31	1.95
571860--571936	20	3.8	20	100	0	154	15	29	20	33	1.94
573695--573731	2	18.5	2	100	0	74	51	0	0	48	1.00
579356--579401	18	2.6	18	82	0	56	36	19	0	43	1.51
579613--579672	21	2.7	22	80	14	79	36	25	18	20	1.94
580487--580525	20	2.0	20	90	9	64	38	7	15	38	1.76
581693--581762	19	3.5	19	76	14	70	32	17	21	28	1.96
582138--582474	79	4.3	79	87	1	469	34	11	23	30	1.90
582298--582444	44	3.6	42	71	20	132	34	11	25	29	1.91
582342--582514	34	4.8	34	74	14	157	36	9	22	31	1.87
582138--582485	157	2.2	158	88	2	502	35	11	23	29	1.90
582510--582631	20	5.5	20	68	21	73	45	9	24	21	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
582511--582630	46	2.6	46	91	0	195	45	9	23	21	1.80
582535--582618	26	3.5	25	70	20	79	47	8	21	22	1.77
582598--582665	34	2.0	34	88	0	100	45	5	25	23	1.75
587035--587085	20	2.5	20	84	6	68	31	15	29	23	1.95
587110--587180	19	3.5	19	81	12	88	32	15	23	28	1.95
587110--587185	20	3.8	20	77	8	82	31	14	25	28	1.95
587586--588417	79	10.6	79	88	2	1190	36	10	23	29	1.88
587753--588368	45	15.5	42	67	24	331	35	10	24	29	1.89
587798--587930	34	3.6	34	73	20	122	34	12	24	29	1.91
588035--588099	34	1.9	34	87	0	94	36	10	23	29	1.88
588410--588484	20	3.5	20	73	19	69	45	8	26	20	1.78
588405--588531	47	2.7	47	88	1	184	44	10	25	20	1.83
588501--588550	20	2.5	20	93	0	82	40	10	28	22	1.86
588520--588610	46	2.0	46	84	4	121	43	6	23	26	1.78
588404--588610	113	1.8	112	86	1	297	43	8	24	22	1.81
588453--588583	67	2.0	67	89	1	201	44	9	24	22	1.81
594128--594177	24	2.1	24	100	0	100	54	24	8	14	1.66
599811--600606	312	2.5	311	84	2	986	35	23	12	27	1.91
601062--601099	19	2.0	19	94	0	67	31	5	23	39	1.77
601063--601108	19	2.4	19	88	0	65	36	4	19	39	1.72
604557--604692	21	6.5	21	85	8	179	29	25	20	25	1.99
604677--604738	21	3.0	21	80	15	76	24	22	20	32	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
604701--604908	21	9.6	20	76	17	141	22	21	25	30	1.99
604682--604908	62	3.8	62	69	22	141	22	21	24	30	1.99
604747--604908	42	3.9	42	81	8	213	22	20	25	30	1.99
606041--606074	10	3.5	10	88	8	52	55	0	0	44	0.99
606126--606170	23	1.9	24	86	4	65	44	17	11	26	1.82
609894--609918	8	3.1	8	100	0	50	12	0	0	88	0.53
616963--617005	3	14.3	3	95	0	77	34	0	0	65	0.93
616996--617209	53	4.0	53	95	0	365	24	7	18	50	1.72
622346--622385	21	1.9	21	94	0	71	30	15	7	47	1.72
622380--622478	33	3.0	33	94	1	164	32	7	15	45	1.73
622714--622770	21	2.7	21	91	0	96	19	26	26	28	1.99
622805--622859	21	2.5	22	97	2	103	18	25	38	18	1.93
622960--623010	17	3.1	17	75	5	52	37	9	11	41	1.75
622958--623013	15	3.6	15	74	9	58	33	12	12	41	1.81
623104--623135	16	2.0	17	88	11	50	43	21	21	12	1.86
623896--623935	18	2.2	19	90	4	64	52	2	7	37	1.43
623974--624000	2	13.5	2	100	0	54	51	0	0	48	1.00
626516--626548	15	2.2	15	94	0	57	66	0	0	33	0.92
629531--629590	30	2.0	30	93	0	102	26	16	5	51	1.65
635259--635402	73	2.0	74	97	1	272	40	16	6	36	1.76
646582--646679	39	2.5	39	94	0	169	23	16	27	32	1.96
650782--650820	3	13.0	3	100	0	78	66	0	0	33	0.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
655633--655682	20	2.5	20	100	0	100	32	40	12	16	1.84
656258--656324	27	2.4	28	86	13	95	55	1	1	41	1.18
656373--656514	41	3.7	37	78	14	153	42	8	4	45	1.54
656373--656514	36	3.7	40	74	20	135	42	8	4	45	1.54
656449--656525	22	3.7	21	76	13	88	40	7	3	48	1.51
656318--656516	76	2.6	75	85	10	251	40	9	5	44	1.59
658326--658514	45	4.2	45	84	2	236	20	18	14	46	1.83
658326--658512	91	2.1	91	84	4	243	20	18	13	47	1.83
661947--662447	54	9.3	54	90	0	752	32	18	17	31	1.94
662692--662744	20	2.7	20	84	0	70	22	26	15	35	1.93

Tables:   1   2   3   4   5   6