genome.fa.s9602.2.7.7.80.10.50.1000.3.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: VEPZ01009602.1 Hibiscus syriacus cultivar Beakdansim tig00116982_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1420948

Tables:   1   2   3   4   5   6   

This is table  3  of  6  ( 718 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)
453674--453698	11	2.3	11	100	0	50	40	8	8	44	1.63
453790--453814	11	2.3	11	100	0	50	40	8	8	44	1.63
453500--453973	116	4.1	113	85	8	509	44	3	6	45	1.49
453993--454033	3	13.7	3	100	0	82	31	0	0	68	0.90
456462--456512	3	17.3	3	78	11	52	29	1	3	64	1.22
456461--456516	14	4.0	15	80	13	66	28	1	5	64	1.26
458411--458777	131	2.8	131	87	1	506	32	11	16	39	1.84
465780--467002	394	3.1	400	83	4	1481	33	21	15	29	1.95
465780--467002	134	9.2	134	82	4	1431	33	21	15	29	1.95
467174--467212	3	13.3	3	89	5	62	33	2	0	64	1.08
469342--469655	130	2.4	131	84	3	402	34	10	15	40	1.81
472407--472447	21	1.9	22	95	5	75	34	14	9	41	1.79
473533--473921	194	2.0	194	96	0	724	39	19	11	29	1.87
474208--474238	15	2.1	15	100	0	62	25	12	0	61	1.32
478475--479147	77	8.8	76	79	6	653	36	10	16	37	1.82
478475--479146	306	2.2	305	84	5	854	36	10	16	37	1.82
478475--479222	154	4.9	152	82	5	769	36	10	16	36	1.82
479227--479282	19	2.8	20	86	5	87	32	8	19	39	1.83
479338--479471	65	2.0	65	80	9	148	36	8	7	47	1.63
479552--479595	19	2.2	20	84	4	54	36	4	20	38	1.73
479696--480103	100	4.1	101	85	4	506	39	10	14	36	1.80
480533--480774	77	3.1	77	73	9	200	40	16	7	36	1.75
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
481049--481113	2	32.5	2	100	0	130	49	0	0	50	1.00
481857--482321	77	6.1	77	85	4	584	35	8	19	35	1.83
481911--482110	40	5.2	40	62	13	121	35	8	20	37	1.82
482011--482135	37	3.3	37	68	6	97	33	11	23	32	1.90
481876--482321	231	1.9	231	86	5	643	35	8	19	36	1.82
482565--482996	101	4.3	102	83	3	479	35	12	15	35	1.86
483225--483394	73	2.3	73	82	6	184	38	13	7	41	1.72
483413--483689	82	3.4	82	89	4	406	40	18	6	34	1.77
483490--483622	44	3.2	44	64	12	116	42	19	3	34	1.69
483911--483952	9	4.7	9	88	8	59	69	0	7	23	1.13
483947--483974	11	2.5	11	100	0	56	67	0	14	17	1.22
484531--484563	13	2.5	13	95	0	57	75	0	15	9	1.03
485403--485453	18	2.7	19	79	11	52	9	15	0	74	1.06
499585--499634	15	3.7	15	70	25	56	28	4	2	66	1.21
499580--499648	25	2.6	27	84	11	106	31	2	2	62	1.25
506300--506363	23	2.8	23	90	0	101	26	26	28	18	1.98
506379--506593	103	2.1	103	96	0	394	36	24	13	25	1.92
507932--507991	20	2.9	21	90	7	95	18	26	25	30	1.98
509197--509253	21	2.8	21	81	2	62	26	26	17	29	1.97
510347--510423	21	3.6	21	73	18	70	53	2	9	35	1.47
512235--512695	41	11.2	41	91	0	681	34	12	19	33	1.90
512708--512736	5	5.8	5	100	0	58	37	0	20	41	1.53
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
516670--516708	20	2.0	20	89	0	60	33	23	10	33	1.88
553817--553863	24	1.9	25	86	4	69	34	14	21	29	1.93
561818--561860	21	2.0	21	86	8	61	53	0	6	39	1.28
574517--574920	41	9.9	40	75	10	264	29	19	19	32	1.96
574949--574974	12	2.2	12	100	0	52	50	0	0	50	1.00
578909--578967	21	2.8	21	84	0	73	18	5	20	55	1.61
579159--579341	43	4.2	44	87	2	239	24	22	24	28	1.99
579120--579341	86	2.6	84	80	5	252	24	22	22	29	1.99
580970--581150	68	2.6	69	76	10	174	29	22	20	28	1.98
588837--588914	31	2.5	31	76	2	84	19	26	25	28	1.99
595940--596001	14	4.4	14	77	0	70	29	30	12	27	1.93
597422--597583	64	2.5	65	75	10	154	31	20	20	26	1.98
598370--598587	103	2.1	103	95	0	391	25	13	23	37	1.91
598603--598671	23	3.0	23	77	8	68	21	21	27	28	1.99
604074--604293	103	2.1	104	94	1	379	27	12	22	37	1.91
604310--604375	23	2.9	23	80	8	80	22	24	24	28	1.99
606891--606978	31	2.8	31	78	10	108	19	26	29	25	1.98
623401--623447	21	2.2	21	92	0	76	44	8	17	29	1.78
628036--628083	21	2.3	21	96	0	87	41	12	18	27	1.86
633545--633575	16	1.9	16	100	0	62	51	25	9	12	1.70
633565--633624	30	2.0	30	96	0	111	55	13	8	23	1.65
633597--633710	59	1.9	60	85	5	160	49	16	7	26	1.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
633678--633757	11	7.1	11	76	5	52	42	18	8	30	1.81
633678--633751	22	3.3	22	75	3	76	41	18	8	31	1.80
635439--635477	14	2.8	14	84	0	51	17	0	25	56	1.41
635436--635477	21	2.0	21	90	0	66	19	0	28	52	1.46
635521--635592	14	5.1	14	81	6	74	23	0	23	52	1.47
635521--635592	7	10.3	7	76	5	65	23	0	23	52	1.47
635524--635585	21	3.0	21	83	6	72	24	0	24	51	1.48
644567--644603	2	18.5	2	100	0	74	51	0	0	48	1.00
648111--648186	35	2.2	35	92	0	125	39	23	1	35	1.63
648584--648831	130	1.9	130	91	0	406	37	15	12	35	1.84
648598--648862	130	2.0	129	80	4	291	40	13	12	33	1.82
649292--649325	16	2.0	18	88	11	54	64	5	2	26	1.30
650074--650134	24	2.4	26	78	15	74	39	4	1	54	1.32
650095--650150	17	3.2	16	78	16	51	32	3	0	64	1.11
650086--650179	42	2.2	41	76	9	100	38	2	2	57	1.23
650254--650326	33	2.2	33	87	0	110	53	1	4	41	1.28
650780--650854	31	2.4	31	91	4	116	50	9	9	30	1.66
651090--651143	22	2.4	21	76	11	54	27	0	11	61	1.30
651937--651985	17	2.9	18	82	8	59	55	0	2	42	1.11
656812--656864	22	2.4	22	100	0	106	28	3	18	49	1.65
657678--657734	15	3.8	15	73	0	60	40	0	50	8	1.33
657676--657734	24	2.5	24	80	0	64	40	0	50	8	1.33
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
657703--657733	12	2.6	12	89	0	53	38	0	54	6	1.26
657682--657739	30	1.9	30	85	0	80	37	0	51	10	1.36
660585--660614	2	15.0	2	100	0	60	50	0	0	50	1.00
664214--664252	12	3.3	12	82	7	53	46	0	0	53	1.00
672060--672110	22	2.3	22	80	9	59	35	3	0	60	1.15
672117--672143	2	13.5	2	100	0	54	48	0	0	51	1.00
672079--672124	23	2.0	23	91	0	74	39	0	0	60	0.97
672689--672777	46	1.9	46	90	0	142	52	12	3	31	1.55
676196--676265	20	3.5	20	84	0	59	22	11	20	45	1.82
676208--676267	20	3.0	20	85	0	75	23	10	18	48	1.78
679969--680009	12	3.3	12	96	3	73	39	7	17	36	1.77
682890--683185	147	2.0	147	100	0	592	29	22	13	34	1.93
690161--690208	21	2.2	22	85	3	62	20	31	10	37	1.87
705486--705546	23	2.7	23	81	0	86	21	27	24	26	1.99
710905--710963	31	2.0	28	83	9	73	23	20	25	30	1.98
715363--715412	25	2.0	25	96	0	91	46	12	18	24	1.82
715922--715957	18	2.0	18	94	0	63	22	19	33	25	1.97
715940--716013	28	2.6	28	91	0	121	20	21	28	29	1.98
723147--723174	8	3.5	8	100	0	56	85	0	0	14	0.59
724515--724641	31	3.9	32	84	12	145	27	14	3	55	1.54
724517--724641	65	2.0	63	83	12	157	27	14	3	55	1.55
724758--724815	26	2.3	25	88	8	82	22	15	3	58	1.52
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
724999--725047	20	2.5	20	79	0	62	40	22	14	22	1.90
725039--725106	20	3.3	20	74	10	66	39	26	10	23	1.87
724946--725126	41	4.5	41	76	8	147	37	23	12	27	1.90
725053--725145	20	4.6	20	81	2	105	33	23	10	32	1.89
725949--725982	12	2.8	12	90	0	50	55	29	0	14	1.40
728672--728729	29	2.0	29	89	0	89	31	17	24	27	1.97
728757--728798	20	2.1	20	95	0	75	19	19	23	38	1.93
730279--730342	21	3.0	21	76	0	74	25	21	32	20	1.97
730483--730528	4	11.5	4	90	0	74	71	2	0	26	0.97
731554--731585	2	16.0	2	100	0	64	50	0	0	50	1.00

Tables:   1   2   3   4   5   6