genome.fa.s1736.2.7.7.80.10.50.1000.3.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: VEPZ01001736.1 Hibiscus syriacus cultivar Beakdansim tig00003507_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1778036

Tables:   1   2   3   4   5   6   7   8   9   

This is table  3  of  9  ( 999 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)
420921--421519	299	2.0	299	96	0	1092	37	15	17	29	1.91
421513--421575	24	2.5	26	82	12	69	71	0	9	19	1.13
421602--421753	43	3.6	42	76	13	134	67	1	1	28	1.09
421721--421771	26	2.0	26	84	7	68	70	3	1	23	1.14
421717--421773	23	2.5	22	78	15	64	70	3	1	24	1.13
422868--422960	39	2.4	39	83	5	118	26	7	23	41	1.81
422946--423179	36	6.6	36	75	17	159	38	13	20	26	1.90
422980--423166	102	1.8	102	84	6	254	38	11	20	28	1.88
423255--423330	37	2.1	37	87	2	109	47	13	17	22	1.81
423217--423456	102	2.4	102	89	0	354	37	12	17	32	1.87
423348--423432	37	2.3	37	79	2	91	40	15	18	25	1.90
423365--423542	86	2.1	86	89	1	266	36	11	17	34	1.86
423452--423649	102	2.0	101	79	7	213	41	11	16	30	1.83
423263--423644	188	2.0	188	84	3	491	39	11	17	31	1.86
423799--424121	106	3.0	105	87	3	434	22	19	23	34	1.97
424717--424811	32	2.9	32	88	1	145	37	21	11	29	1.88
424712--424818	32	3.3	32	83	3	135	37	22	13	27	1.91
425744--425881	69	2.0	69	91	0	222	25	14	21	38	1.91
425944--425986	19	2.3	19	83	0	59	0	16	9	74	1.06
429043--429097	23	2.4	22	81	6	65	72	0	5	21	1.04
429077--429245	49	3.5	44	77	16	144	72	1	5	20	1.13
429178--429257	36	2.2	36	82	4	99	70	1	2	26	1.08
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
429252--429276	2	12.5	2	100	0	50	52	0	0	48	1.00
429281--429339	20	2.9	19	78	16	57	67	5	1	25	1.20
429298--429347	26	1.9	26	84	8	66	70	4	2	24	1.15
429293--429347	23	2.4	24	77	22	64	70	3	1	23	1.12
441420--441526	34	3.1	33	78	14	85	34	0	3	61	1.14
441453--441531	34	2.4	34	85	8	101	37	0	1	60	1.05
441671--441724	17	3.2	17	72	0	54	31	0	3	64	1.11
443306--443378	21	3.5	21	87	7	103	19	34	26	20	1.96
443892--443988	33	2.9	34	85	3	133	55	4	3	37	1.35
443890--443995	34	3.2	33	82	8	133	54	4	2	37	1.36
444389--445142	128	5.9	127	93	1	1265	32	19	24	23	1.98
444389--445145	384	2.0	384	97	0	1442	32	19	24	23	1.98
445216--445256	8	5.2	8	82	5	57	36	29	0	34	1.58
449560--449596	19	2.0	18	89	5	56	59	0	0	40	0.97
451912--452058	32	4.6	32	75	13	133	29	17	18	34	1.94
451910--452050	64	2.2	64	94	0	246	28	17	18	36	1.93
456015--456054	20	2.0	20	90	0	62	32	30	30	7	1.85
460895--460945	19	2.6	20	78	12	61	31	19	23	25	1.98
463465--463534	21	3.3	21	92	4	106	42	30	5	21	1.76
466301--466535	41	5.8	41	81	7	246	35	17	19	28	1.94
466313--466547	123	1.9	123	81	6	289	34	17	20	28	1.95
466301--466565	123	2.2	123	79	9	281	35	17	19	27	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
469242--469478	126	1.9	126	79	3	271	27	22	26	23	2.00
473833--473885	10	6.0	10	81	18	57	54	0	0	45	0.99
473838--473884	12	3.8	12	85	2	67	55	0	0	44	0.99
474410--474500	20	4.5	20	84	5	112	38	19	12	29	1.88
474410--474500	41	2.2	40	88	1	128	38	19	12	29	1.88
474505--475062	229	2.4	234	86	5	745	37	15	16	31	1.90
475529--475581	22	2.4	22	96	0	97	33	15	15	35	1.88
481682--481716	3	11.0	3	88	11	52	68	0	31	0	0.90
481683--481713	10	3.1	10	100	0	62	70	0	29	0	0.87
481682--481717	13	2.7	14	91	8	58	69	0	30	0	0.89
487279--487347	23	3.0	23	76	0	75	31	24	21	21	1.98
487551--487610	31	2.0	31	87	9	88	35	25	3	36	1.72
491120--491156	14	2.6	14	100	0	74	56	0	0	43	0.99
492472--492519	10	5.4	10	80	19	54	56	0	0	43	0.99
492470--492518	12	4.0	12	86	2	71	55	0	0	44	0.99
493040--493150	20	5.6	20	92	0	177	37	20	13	27	1.91
493323--493386	20	3.2	20	68	14	51	35	18	18	26	1.94
493122--493669	240	2.3	242	89	0	841	36	17	16	29	1.92
493788--493828	16	2.6	16	96	0	73	21	26	9	41	1.84
498874--499071	74	2.7	75	89	3	280	51	5	8	34	1.54
499070--499109	14	2.9	14	100	0	80	37	0	0	62	0.95
504338--504392	23	2.4	23	100	0	110	14	27	12	45	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
505915--506027	5	19.7	6	75	21	84	42	0	3	53	1.24
505922--506027	12	7.8	13	75	21	85	42	0	2	53	1.22
505917--506029	14	8.4	14	76	17	107	41	0	4	53	1.27
509486--509678	7	27.6	7	74	14	132	46	3	0	50	1.21
509494--509677	5	36.2	5	71	21	82	46	3	0	50	1.22
509486--509715	2	124.0	2	69	21	137	48	3	0	47	1.23
509495--509726	5	46.4	5	69	19	58	48	4	0	46	1.28
509590--509707	25	4.9	22	79	13	101	50	2	0	47	1.14
519699--519896	74	2.7	74	88	3	260	51	5	8	35	1.55
521056--521112	23	2.5	23	85	0	69	8	22	15	52	1.70
522618--522833	7	31.3	7	76	14	166	43	1	4	50	1.31
522829--522900	23	3.2	23	67	13	60	18	19	15	47	1.83
523439--523482	23	1.9	23	90	0	70	45	13	18	22	1.84
524678--524792	24	4.8	24	83	4	151	40	17	13	27	1.88
524678--524792	48	2.4	48	89	2	169	40	17	13	27	1.88
529420--529528	24	4.5	24	83	4	139	41	18	14	25	1.89
535282--535496	7	30.0	7	77	14	183	41	1	2	53	1.24
535282--535490	2	108.5	2	75	16	183	41	1	2	54	1.24
535695--535720	5	5.2	5	100	0	52	23	57	19	0	1.40
544924--544994	34	2.1	33	89	2	106	22	29	15	32	1.95
545339--545416	8	11.1	8	66	27	52	25	16	37	20	1.93
545346--545406	12	5.7	12	70	29	57	26	16	37	19	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
545339--545434	20	4.7	20	94	1	138	28	17	33	20	1.96
545497--545554	21	2.8	21	100	0	116	24	18	36	20	1.95
545636--545695	30	2.0	30	90	0	93	43	18	5	33	1.72
545805--545844	21	1.9	21	94	0	71	50	7	10	32	1.64
547926--547972	2	23.5	2	100	0	94	51	0	0	48	1.00
548140--548227	24	3.7	24	81	0	95	48	18	12	20	1.80
548133--548241	48	2.3	47	83	3	137	50	17	12	19	1.78
548135--548204	12	5.8	12	75	6	61	52	18	12	15	1.74
548164--548239	24	3.2	24	78	10	84	46	18	15	19	1.85
553137--553335	74	2.7	75	87	4	264	51	5	8	34	1.56
554485--554557	23	3.3	23	69	12	64	12	17	16	53	1.73
555931--555976	24	1.9	24	95	0	83	28	23	17	30	1.97
555989--556041	21	2.5	21	84	0	70	24	24	16	33	1.96
556031--556101	20	3.5	20	84	3	90	35	19	21	23	1.96
556765--556822	20	2.9	20	84	0	62	18	17	20	43	1.89
556794--556833	20	2.0	20	100	0	80	10	15	20	55	1.68
556798--556841	20	2.2	20	87	0	61	13	13	20	52	1.74
558702--558805	20	5.5	20	80	13	130	40	22	19	18	1.92
558705--558843	54	2.6	54	90	1	208	39	20	21	17	1.92
558852--558898	20	2.3	20	88	0	67	21	19	23	36	1.95
558820--558985	87	1.9	87	89	0	260	19	19	22	37	1.94
558872--558963	33	2.7	34	79	3	105	15	19	22	42	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
558939--559045	20	5.3	20	87	0	151	18	19	23	38	1.93
559531--559572	21	2.2	19	87	12	59	21	35	19	23	1.96
559526--559636	42	2.6	42	77	5	109	20	36	18	23	1.95
561127--561222	33	2.8	33	87	3	129	42	20	22	13	1.87
561273--561318	19	2.4	19	96	0	83	17	17	17	47	1.83
561242--561371	52	2.4	53	83	3	145	17	22	17	42	1.89
561324--561391	20	3.4	20	75	6	66	19	20	22	38	1.94
564206--564538	7	48.0	7	74	15	205	40	2	4	52	1.35
564197--564532	2	175.5	2	68	23	165	40	2	4	52	1.35
564464--564530	27	2.7	24	80	17	82	38	1	1	58	1.17

Tables:   1   2   3   4   5   6   7   8   9