genome.fa.s7770.2.7.7.80.10.50.1000.3.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: VEPZ01007770.1 Hibiscus syriacus cultivar Beakdansim tig00110050_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1450453

Tables:   1   2   3   4   5   6   7   8   

This is table  3  of  8  ( 841 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)
382147--382266	49	2.4	51	87	5	174	29	20	24	26	1.99
387278--387308	12	2.7	12	95	5	55	29	41	0	29	1.56
389181--389207	4	6.8	4	100	0	54	77	0	22	0	0.76
390416--390440	2	12.5	2	100	0	50	48	0	0	52	1.00
390985--391018	15	2.3	15	89	0	50	41	14	23	20	1.89
393349--393398	24	2.1	24	85	7	66	28	2	12	58	1.45
396605--396647	14	3.0	15	83	10	54	16	0	6	76	0.99
398967--399016	24	2.1	24	85	7	66	28	2	12	58	1.45
400931--400959	2	14.5	2	100	0	58	51	0	0	48	1.00
403336--403418	29	2.8	29	94	1	148	40	13	14	31	1.84
408067--408149	29	2.8	29	88	1	130	40	13	14	31	1.84
412714--412752	20	2.0	20	94	0	69	5	30	5	58	1.41
414773--414817	21	2.1	21	87	0	63	31	28	24	15	1.96
416508--416574	22	3.0	22	95	2	116	19	26	28	25	1.99
418620--418658	20	2.0	20	94	0	69	5	30	5	58	1.41
419137--419179	14	3.1	13	84	15	59	53	0	0	46	1.00
435766--435799	18	1.9	18	88	5	52	50	0	20	29	1.49
436927--436996	12	5.8	12	75	6	52	18	11	18	51	1.75
436890--436998	48	2.3	49	82	3	123	21	14	16	47	1.82
436904--436998	24	4.0	24	78	0	100	22	12	16	48	1.80
438138--438206	31	2.2	32	79	5	79	30	11	20	37	1.88
439877--439916	18	2.2	18	100	0	80	17	30	22	30	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
440413--440452	20	2.0	20	100	0	80	20	10	25	45	1.81
441950--442000	19	2.6	19	87	3	75	33	19	31	15	1.93
444788--444835	25	1.9	25	91	0	78	31	4	16	47	1.65
451969--452132	29	5.9	29	71	13	110	38	3	11	46	1.56
451969--452124	52	2.8	59	71	17	143	37	3	10	48	1.55
452086--452144	29	2.0	29	86	3	82	33	1	22	42	1.63
452866--452914	14	3.5	13	80	20	55	24	12	12	51	1.73
453904--454167	89	2.9	90	83	6	293	34	14	14	37	1.85
460358--460405	17	2.5	20	77	19	57	33	12	16	37	1.86
460815--460863	25	2.0	25	84	8	64	57	0	2	40	1.10
462639--462681	20	2.3	18	84	8	50	44	4	6	44	1.52
463081--463121	18	2.3	18	88	12	59	39	0	0	60	0.96
466313--466370	22	2.7	22	83	2	82	20	15	12	51	1.75
468718--468774	21	2.7	21	73	10	53	47	0	3	49	1.18
468992--469027	3	11.7	3	94	5	63	33	0	0	66	0.92
471405--471509	3	36.0	3	94	5	189	34	0	0	65	0.93
473745--473821	35	2.2	35	92	0	127	40	20	0	38	1.53
473765--473874	35	3.1	35	78	11	84	41	8	9	40	1.66
478252--478285	16	2.1	17	88	5	52	44	5	14	35	1.70
484056--484116	24	2.5	24	94	0	104	22	27	21	27	1.99
490068--490106	20	2.0	21	90	10	64	35	5	2	56	1.35
490259--490305	13	3.6	13	82	5	51	8	14	2	74	1.15
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
490866--490914	13	3.5	13	78	13	53	28	2	0	69	1.00
491248--491288	21	2.0	21	85	9	57	51	0	2	46	1.14
492522--492546	3	8.3	3	100	0	50	68	0	32	0	0.90
495560--495616	3	19.0	3	85	7	80	36	0	0	63	0.95
497177--497223	18	2.5	19	86	10	62	36	6	2	55	1.37
497563--497602	11	3.3	13	80	13	50	50	2	0	47	1.14
497882--497910	15	2.0	15	93	6	51	34	6	3	55	1.44
512994--513230	117	2.0	117	89	4	359	36	13	8	41	1.75
515328--515409	32	2.6	32	84	3	94	35	12	20	31	1.90
518189--518218	12	2.5	12	100	0	60	36	10	20	33	1.86
522409--522635	77	3.0	76	84	3	303	39	7	16	36	1.76
522835--523076	110	2.1	116	86	4	343	41	10	11	36	1.76
523251--523636	100	3.9	100	79	3	368	37	10	13	37	1.81
526299--526384	34	2.5	34	96	1	154	60	0	0	39	0.97
528493--528590	47	2.1	47	96	0	178	50	1	6	42	1.34
539386--539418	16	1.9	17	88	11	50	36	0	3	60	1.12
539381--539420	17	2.3	19	79	16	50	32	0	2	65	1.06
539515--539555	18	2.2	19	86	4	57	41	0	4	53	1.22
544739--545023	96	3.0	96	96	0	525	37	5	11	45	1.63
553290--553403	51	2.2	52	84	4	142	62	7	10	19	1.51
556005--556039	18	1.9	18	88	0	52	20	17	34	28	1.95
560927--560998	18	3.8	18	80	10	90	16	20	31	30	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
560927--561003	39	2.0	39	94	0	136	19	19	29	31	1.96
561402--561441	21	1.9	21	85	10	55	55	0	17	27	1.43
562659--562902	93	2.6	92	84	1	301	28	16	25	29	1.97
562854--563032	59	3.0	59	86	0	232	32	13	24	28	1.94
563050--563422	74	5.0	74	83	4	335	38	13	15	32	1.87
563100--563414	110	2.8	110	92	1	488	38	13	15	31	1.87
563050--563422	184	2.0	187	90	2	583	38	13	15	32	1.87
565244--565331	20	4.3	20	70	8	52	30	22	19	27	1.98
566117--566170	24	2.2	24	93	0	90	20	18	20	40	1.91
566360--566396	14	2.6	14	91	4	56	51	21	21	5	1.68
568409--568443	18	1.9	18	94	0	61	54	25	2	17	1.57
568636--568719	20	4.2	20	87	1	116	29	22	20	27	1.98
568818--568987	71	2.5	64	81	14	166	51	17	2	29	1.58
570286--570379	42	2.2	42	86	3	127	20	19	38	22	1.94
570286--570400	21	5.5	21	72	4	88	22	18	37	21	1.94
570313--570406	42	2.2	42	80	0	116	26	15	37	20	1.93
570884--570927	20	2.2	20	95	0	79	50	22	13	13	1.77
570914--570961	20	2.4	20	92	0	78	35	27	18	18	1.95
571006--571043	20	1.9	20	94	0	67	13	21	18	47	1.82
572706--572760	25	2.2	25	78	15	60	52	20	7	20	1.69
572907--573012	20	5.4	20	85	3	117	46	23	16	14	1.83
573520--573594	20	3.7	19	70	10	60	22	18	26	32	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
573610--573656	21	2.2	21	80	0	58	34	19	21	25	1.96
573702--573738	19	1.9	19	94	0	65	21	16	29	32	1.95
575178--575249	21	3.3	21	69	7	63	23	12	27	36	1.91
576560--576604	22	2.2	20	84	8	54	53	0	0	46	1.00
577905--577946	21	2.0	22	86	13	61	38	4	4	52	1.44
579891--579920	10	3.0	10	90	0	51	30	36	0	33	1.58
579958--579991	17	1.9	18	94	5	61	26	0	8	64	1.22
579987--580034	21	2.3	21	88	0	69	29	0	0	70	0.87
579999--580030	13	2.5	13	94	0	55	31	0	0	68	0.90
584692--584761	29	2.4	29	76	4	70	42	7	21	28	1.79
586571--586665	24	4.0	24	87	1	129	31	23	23	22	1.98
591073--591116	12	3.6	12	81	3	52	52	0	18	29	1.46
592066--592097	5	6.4	5	100	0	64	0	0	18	81	0.70
595953--595977	2	12.5	2	100	0	50	0	48	0	52	1.00
596775--596806	14	2.3	14	94	0	55	34	6	9	50	1.60
596968--597025	30	2.0	27	83	9	71	41	1	1	55	1.20
597010--597078	21	3.3	21	69	23	56	46	0	1	52	1.09
597387--597441	14	3.9	14	81	11	60	52	1	1	43	1.22
597417--597478	20	3.1	20	75	15	65	46	0	1	51	1.10
606338--606726	185	2.1	184	91	1	620	42	3	8	46	1.50
618191--618235	15	3.0	15	83	0	54	33	6	48	11	1.65
636347--636674	160	2.0	160	95	0	602	44	7	5	42	1.56
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
638325--638372	3	15.3	3	78	8	51	58	0	0	41	0.98
638310--638381	28	2.6	29	81	14	82	52	0	0	47	1.00
638335--638380	22	2.1	22	88	8	67	52	0	0	47	1.00
638319--638374	16	3.5	16	76	16	62	55	0	0	44	0.99
638500--639066	76	7.5	76	95	0	1001	34	22	20	23	1.97
639092--639381	156	1.9	152	86	2	409	37	13	12	37	1.82
640296--640453	54	3.0	54	80	9	184	25	20	15	38	1.92
644724--644836	8	13.5	8	74	12	93	3	19	0	76	0.92
644746--644822	7	10.7	7	75	20	54	2	19	0	77	0.88
644737--644833	16	5.9	16	79	8	106	3	20	0	76	0.92

Tables:   1   2   3   4   5   6   7   8