genome.fa.s1985.2.7.7.80.10.50.1000.3.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: VEPZ01001985.1 Hibiscus syriacus cultivar Beakdansim tig00004046_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  712196

Tables:   1   2   3   4   

This is table  3  of  4  ( 431 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)
363137--363364	113	2.0	113	100	0	456	29	16	22	31	1.96
367310--367404	45	2.4	38	75	23	104	44	6	22	27	1.77
367324--367412	45	2.0	45	100	0	178	40	6	22	30	1.80
378835--378875	19	2.2	19	86	8	57	48	7	9	34	1.64
389292--389328	18	2.1	18	100	0	74	37	27	13	21	1.91
390560--390598	20	2.0	20	85	10	53	38	5	12	43	1.65
390605--390690	27	3.2	27	63	18	70	34	5	12	46	1.66
390559--390707	54	2.8	53	90	5	223	34	6	11	47	1.64
390666--390705	20	2.0	20	95	0	71	37	5	12	45	1.64
395280--395424	20	8.0	20	65	25	63	34	6	12	46	1.66
395279--395426	53	2.8	52	93	3	253	33	6	12	47	1.65
403043--403097	20	2.8	20	100	0	110	40	16	16	27	1.89
403084--403502	181	2.3	181	88	3	610	43	13	16	26	1.85
405428--405482	24	2.4	23	85	11	78	43	0	5	50	1.25
405761--405790	15	2.0	15	93	0	51	30	13	43	13	1.82
406680--406728	23	2.1	23	88	7	73	69	0	0	30	0.89
406682--406789	35	3.2	32	75	17	103	63	0	1	33	1.11
406691--406795	41	2.8	37	75	14	108	63	0	1	33	1.11
406775--406800	2	13.0	2	100	0	52	50	0	0	50	1.00
407960--408041	36	2.4	34	89	6	121	34	9	15	40	1.81
408059--408168	36	3.1	36	80	5	134	39	15	21	23	1.92
408068--408157	34	2.6	35	87	3	119	43	17	20	18	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
408182--408240	30	2.0	30	83	12	77	33	11	16	37	1.86
408226--408410	36	5.3	36	69	16	129	41	12	18	27	1.87
408195--408434	102	2.4	102	92	1	392	37	12	18	31	1.88
408324--408410	37	2.4	36	82	5	95	41	13	19	25	1.88
408343--408521	87	2.1	87	91	0	286	37	12	17	32	1.87
408242--408626	189	2.0	188	85	2	513	39	11	18	30	1.86
409568--409656	32	2.8	32	82	3	99	37	21	14	26	1.92
410564--410701	69	2.0	69	90	2	215	25	14	21	38	1.91
410762--410823	25	2.5	25	89	7	92	4	14	3	77	1.06
410762--410821	12	4.8	13	80	10	72	5	15	3	76	1.08
413819--413862	21	2.1	22	83	8	56	72	2	6	18	1.17
413916--413990	25	3.1	23	73	21	66	76	1	5	17	1.05
413935--414019	4	21.2	4	72	13	50	75	1	1	22	0.94
413911--414038	47	2.8	44	82	9	141	73	0	3	21	1.04
413952--414032	36	2.3	35	82	4	101	72	0	2	24	0.96
414080--414122	20	2.0	22	82	13	54	67	4	2	25	1.22
420998--421061	3	21.3	3	90	0	101	60	0	3	35	1.12
421615--421661	24	2.0	23	84	12	60	14	21	6	57	1.60
421585--422383	113	7.0	113	91	2	1110	28	19	14	37	1.91
423142--423733	82	7.2	82	98	0	1112	35	20	14	29	1.92
424504--424550	16	2.7	18	90	9	71	53	8	6	31	1.57
424881--424937	13	4.3	13	86	8	80	0	15	0	84	0.63
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
424888--424940	9	5.9	9	80	8	63	0	16	0	83	0.66
424881--424937	27	2.1	27	90	3	89	0	15	0	84	0.63
435558--435612	28	2.0	28	82	7	67	63	1	5	29	1.27
437735--437801	3	22.3	3	93	0	89	58	0	1	40	1.07
438582--438621	21	1.9	21	90	10	64	30	7	7	55	1.56
439564--439638	37	2.0	37	92	5	125	28	14	24	33	1.94
443342--443399	23	2.6	23	91	2	91	27	20	29	22	1.99
443982--444051	34	2.1	32	86	5	95	22	30	15	31	1.95
444459--444557	21	4.7	21	75	7	94	23	17	36	23	1.95
444781--444820	21	1.9	21	89	0	62	50	10	5	35	1.58
447904--447956	20	2.7	20	84	0	70	30	20	30	18	1.97
451643--451682	21	1.9	21	90	10	64	30	5	7	57	1.48
454048--454096	19	2.6	19	96	0	89	32	2	10	55	1.45
454544--455091	201	2.7	201	91	1	857	38	14	13	32	1.86
455408--455436	15	1.9	15	100	0	58	27	37	6	27	1.82
456600--456633	12	2.8	12	90	0	50	41	2	32	23	1.69
458023--458061	18	2.2	18	90	0	60	33	5	15	46	1.68
459303--460486	198	6.0	196	85	5	1360	38	14	15	30	1.88
459303--460486	396	3.0	391	84	6	1502	38	14	15	30	1.88
462055--462095	19	2.2	19	90	0	64	31	4	9	53	1.55
464814--465290	200	2.4	199	82	2	575	41	14	13	30	1.84
465408--465470	23	2.8	23	85	2	74	36	14	4	44	1.66
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
465333--465492	85	1.9	87	89	2	252	36	12	7	43	1.71
467169--467210	14	3.0	14	96	0	75	16	64	11	7	1.48
479000--479450	224	2.0	224	98	1	870	34	23	13	28	1.93
479917--479956	18	2.4	17	88	12	57	72	17	10	0	1.11
481385--481453	13	4.7	16	69	20	60	37	15	23	23	1.93
481385--481470	29	3.0	29	91	0	145	37	17	24	20	1.94
486754--486800	20	2.3	20	100	0	94	19	4	29	46	1.68
496084--496219	73	1.9	72	81	1	164	25	24	18	31	1.97
498410--498444	16	2.2	16	89	0	52	25	20	20	34	1.96
498988--499015	11	2.5	11	100	0	56	25	0	0	75	0.81
498979--499052	35	2.1	35	80	9	80	29	0	5	64	1.15
501003--501064	32	1.9	32	93	0	106	40	11	27	20	1.87
505917--505966	21	2.4	21	86	0	64	28	18	24	30	1.97
508330--508395	21	3.2	21	81	10	66	68	0	6	25	1.13
509869--510181	103	3.1	98	77	10	290	45	5	3	46	1.42
509971--510264	36	8.2	36	80	11	275	43	6	3	46	1.44
509971--510306	37	9.2	36	75	15	230	43	6	2	47	1.43
510005--510213	66	3.1	65	81	14	219	43	6	3	46	1.45
510297--510338	2	21.0	2	100	0	84	50	0	0	50	1.00
517263--517329	32	2.1	32	94	0	116	20	22	16	40	1.91
522405--522447	17	2.5	17	96	0	77	27	34	16	20	1.94
527694--528379	343	2.0	343	99	0	1354	36	17	15	29	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
530326--530376	26	2.0	26	96	0	93	33	29	15	21	1.94
531349--531569	81	2.7	81	90	2	329	27	24	13	35	1.92
538931--538983	22	2.4	22	96	0	97	26	16	0	56	1.41
541578--541626	16	2.9	16	84	9	53	51	26	0	22	1.49
543577--543639	23	2.7	23	90	0	99	30	19	28	22	1.98
547430--547469	21	1.9	21	89	0	62	30	7	7	55	1.56
549455--549495	20	2.0	20	95	0	73	12	21	41	24	1.87
553629--553693	29	2.3	28	84	5	94	26	27	9	36	1.87
553965--554030	28	2.4	28	97	0	123	50	12	19	18	1.78
553977--554042	28	2.6	25	90	9	98	54	10	18	16	1.70
554461--554619	26	6.0	26	72	10	106	36	14	11	37	1.82
554481--554672	81	2.4	81	92	0	312	34	15	9	40	1.80
554690--554740	26	1.9	27	88	4	77	35	15	9	39	1.81
554792--554843	26	2.0	27	92	3	88	34	7	17	40	1.78
556941--556973	15	2.2	15	89	10	50	18	9	12	60	1.57
557414--557450	2	18.5	2	94	0	65	48	0	2	48	1.15
558311--558351	15	2.6	16	81	14	50	78	0	7	14	0.96
558287--558366	13	6.4	13	70	13	51	72	0	10	17	1.11
558364--558403	2	20.5	2	94	5	73	50	0	0	50	1.00
558420--558473	21	2.8	18	84	15	65	64	3	1	29	1.21
558420--558474	18	2.8	20	83	8	69	65	3	1	29	1.20
558648--558704	22	2.7	21	81	8	62	61	0	1	36	1.07
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
559233--559329	37	2.6	37	83	0	122	31	10	16	41	1.82
560060--561190	106	10.7	106	89	2	1620	23	18	23	33	1.97
561585--561645	32	1.9	32	87	9	90	36	19	11	32	1.88
561798--561858	24	2.5	24	94	0	104	40	1	19	37	1.62
562050--562125	22	3.5	22	92	0	125	21	11	26	40	1.87
567399--567432	2	17.5	2	93	6	61	50	0	0	50	1.00
568259--568360	37	2.8	37	82	4	125	31	11	15	41	1.83
569646--569686	21	2.0	21	90	0	64	39	9	0	51	1.35
570726--570769	21	2.1	21	100	0	88	43	13	0	43	1.44
579550--579967	208	2.0	210	98	1	806	40	11	15	31	1.84

Tables:   1   2   3   4