genome.fa.s8610.2.7.7.80.10.50.1000.3.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: VEPZ01008610.1 Hibiscus syriacus cultivar Beakdansim tig00111566_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2108335

Tables:   1   2   3   4   5   6   7   8   9   10   11   

This is table  3  of  11  ( 1240 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)
425604--425635	9	3.4	9	91	8	55	90	0	9	0	0.45
425604--425640	10	3.7	10	92	7	58	89	0	10	0	0.49
425602--425641	16	2.4	16	91	4	62	87	0	12	0	0.54
427220--427249	12	2.5	12	94	0	51	16	16	0	66	1.25
427833--427872	21	1.9	21	84	0	53	50	2	17	30	1.59
427894--427950	30	1.9	30	82	7	71	42	0	0	57	0.98
428109--428194	41	2.1	42	84	2	111	44	19	11	24	1.84
430714--430778	15	4.2	15	77	12	69	67	1	1	29	1.09
430933--430994	2	31.0	2	100	0	124	50	0	0	50	1.00
431180--431247	25	2.7	25	79	0	73	41	13	4	41	1.64
431396--431436	16	2.6	16	88	7	57	21	0	2	75	0.92
438068--438109	17	2.5	17	82	14	52	2	23	2	71	1.10
442794--442828	12	2.9	12	86	0	52	11	2	0	85	0.69
443681--443718	19	2.1	19	85	9	53	47	13	23	15	1.81
454130--454170	3	13.7	3	94	0	73	70	0	0	29	0.87
454366--454766	135	3.0	135	79	3	448	25	15	30	28	1.96
454874--454973	36	2.7	37	79	3	121	42	12	21	25	1.87
454874--455003	37	3.5	37	80	2	136	41	13	19	26	1.87
460057--460123	23	2.8	24	75	9	64	55	4	4	35	1.40
461704--461761	22	2.6	22	72	0	53	5	15	6	72	1.24
465086--465115	7	4.3	7	100	0	60	16	0	0	83	0.65
465449--465482	11	3.1	11	86	0	50	0	47	2	50	1.16
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
465496--465524	11	2.7	11	94	5	51	31	31	6	31	1.84
468599--468648	21	2.4	21	86	3	75	26	22	14	38	1.91
468824--468874	22	2.3	22	96	0	93	19	45	15	19	1.86
469197--469234	20	1.9	20	100	0	76	15	18	13	52	1.74
471247--471350	21	5.0	21	82	3	120	21	35	18	25	1.95
471247--471365	42	2.8	42	89	0	175	21	36	19	23	1.95
471251--471365	21	5.5	21	80	4	115	20	36	20	22	1.95
471471--471501	16	1.9	16	100	0	62	22	19	32	25	1.97
472734--472879	64	2.3	62	94	3	249	28	2	17	52	1.55
472938--472980	20	2.2	20	91	0	68	37	20	16	25	1.93
472995--473051	20	2.8	20	86	0	87	36	26	21	15	1.93
473291--473331	12	3.4	12	82	0	55	17	0	29	53	1.44
476012--476050	16	2.4	16	86	0	51	64	2	2	30	1.21
476206--476315	20	5.4	20	69	21	68	32	13	22	30	1.93
476207--476326	40	3.0	39	76	10	125	32	13	23	30	1.93
476333--476374	20	2.1	20	95	0	75	21	19	23	35	1.96
479264--479312	3	16.7	3	95	4	91	32	0	0	67	0.91
479729--479898	78	2.2	78	84	4	209	17	24	24	34	1.96
479754--479898	39	3.7	38	87	2	182	16	26	24	33	1.96
484940--484986	23	2.0	23	95	0	85	27	25	25	21	1.99
485500--485541	15	2.8	15	96	0	75	47	9	16	26	1.77
486207--486235	15	1.9	15	100	0	58	62	10	0	27	1.28
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
490150--490194	23	2.0	23	86	0	63	48	8	8	33	1.65
493530--493601	30	2.3	30	80	4	81	26	15	12	45	1.81
493767--493895	39	3.3	39	82	7	156	19	27	21	31	1.97
495290--495351	30	2.1	30	87	0	88	24	20	17	37	1.94
501342--501545	68	3.0	68	86	0	264	31	26	14	27	1.95
501809--502471	54	12.3	55	83	6	338	31	21	18	28	1.97
501835--502023	55	3.5	54	87	2	290	26	21	17	33	1.96
501936--502689	54	13.9	54	84	2	915	32	21	18	27	1.96
501848--502689	108	7.8	108	85	2	850	31	21	18	28	1.97
507211--507347	68	2.0	68	84	2	177	31	23	14	30	1.94
507613--507823	55	3.8	55	90	1	316	28	22	16	33	1.95
507814--508272	54	8.6	54	85	1	611	31	20	19	27	1.97
510407--510461	26	2.1	26	96	0	101	38	29	12	20	1.89
513869--513989	51	2.4	51	87	0	161	23	23	31	22	1.98
517873--517932	3	20.0	3	80	0	57	23	35	8	33	1.85
517880--517932	12	4.4	12	85	0	70	22	33	9	33	1.86
517880--517932	15	3.5	15	86	0	79	22	33	9	33	1.86
519974--520044	12	5.5	12	75	20	63	67	1	1	29	1.07
519975--520050	29	2.6	29	82	10	86	67	1	1	30	1.07
520014--520051	17	2.2	18	90	4	60	71	2	0	26	1.00
526129--526155	6	4.5	6	100	0	54	70	0	0	29	0.88
527989--528065	20	3.8	19	70	14	55	33	22	22	22	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
527702--528681	233	4.2	233	92	0	1602	33	17	16	32	1.93
527702--528681	465	2.1	466	92	0	1622	33	17	16	32	1.93
528517--529281	150	5.1	150	95	0	1350	32	15	16	35	1.90
529263--529364	42	2.5	41	77	3	114	31	22	21	24	1.98
539127--539166	18	2.2	18	95	0	71	20	42	5	32	1.73
540059--540107	16	3.1	16	85	5	55	46	16	28	8	1.75
540178--540508	81	4.0	81	79	7	301	35	16	14	33	1.89
542656--542719	33	1.9	33	87	0	92	20	10	23	45	1.82
542722--542801	27	3.0	28	67	7	67	12	8	27	51	1.69
553862--553899	11	3.5	11	85	7	51	76	0	2	21	0.91
553868--553925	21	2.7	21	73	10	64	72	0	5	22	1.04
553868--553921	11	5.1	11	74	17	51	72	0	5	22	1.05
553966--554010	18	2.5	18	85	0	63	73	0	6	20	1.05
555850--556072	44	5.2	44	64	21	148	19	25	26	28	1.99
555919--556059	42	3.3	42	63	21	103	17	26	26	29	1.98
555821--556114	86	3.4	86	93	0	489	21	24	24	28	1.99
558306--558360	2	27.5	2	100	0	110	50	0	0	49	1.00
562059--562101	18	2.4	18	92	0	68	72	0	6	20	1.08
563049--563085	4	8.8	4	88	11	56	75	0	2	21	0.92
563053--563091	18	2.1	19	95	4	71	74	0	5	20	1.01
563048--563092	18	2.6	18	83	16	67	73	0	4	22	1.01
566407--566465	29	2.0	28	83	12	73	45	32	1	20	1.61
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
570063--570111	18	2.7	18	93	0	89	26	12	12	48	1.75
576966--577009	18	2.4	18	84	0	70	34	11	9	45	1.72
577144--577224	41	2.0	41	90	0	126	24	16	16	43	1.87
579023--579087	29	2.2	29	86	10	105	27	16	4	50	1.65
579089--579118	15	1.9	16	93	6	53	23	0	6	70	1.11
579055--579596	135	4.1	134	84	5	678	22	16	14	46	1.83
579055--579596	265	2.1	262	87	3	766	22	16	14	46	1.83
580726--580783	20	2.8	20	97	2	107	43	5	5	46	1.48
592152--592201	6	8.5	6	78	12	50	34	0	0	66	0.92
592145--592189	12	3.8	12	80	19	58	31	0	0	68	0.89
592176--592294	20	5.7	19	70	22	80	43	0	0	55	1.05
592152--592262	23	4.6	25	77	16	92	39	0	0	59	1.04
592214--592287	39	2.0	35	84	10	94	43	0	1	55	1.08
592181--592315	62	2.2	63	89	8	213	43	0	1	54	1.09
592190--592355	89	1.9	86	79	10	185	43	0	1	54	1.12
592168--592364	89	2.2	84	75	12	182	42	0	1	56	1.10
592834--592893	31	1.9	31	93	0	102	43	10	6	40	1.64
593916--593955	3	13.3	3	100	0	80	67	0	0	32	0.91
595138--595191	6	9.0	6	100	0	108	33	50	0	16	1.46
603894--603922	12	2.3	13	94	5	51	31	0	0	68	0.89
615002--615507	170	3.1	169	87	10	812	33	24	16	25	1.96
615161--615464	152	2.0	152	97	0	572	34	24	14	25	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
617310--617338	12	2.3	13	94	5	51	31	0	0	68	0.89
619386--619447	32	1.9	32	84	12	83	9	17	4	67	1.36
622642--622752	57	1.9	57	81	0	132	23	26	15	35	1.94
625240--625286	20	2.4	19	89	10	76	55	10	17	17	1.69
625420--625466	20	2.4	19	82	10	67	53	10	17	19	1.72
625028--625499	180	2.6	182	90	1	707	42	14	17	26	1.87
625429--625471	20	2.3	19	88	11	63	51	11	16	20	1.75
627701--627765	21	3.1	21	79	0	76	38	13	30	16	1.88
627799--627864	33	2.0	33	90	0	105	28	0	48	22	1.51
629642--629690	19	2.6	19	93	0	80	30	2	10	57	1.43

Tables:   1   2   3   4   5   6   7   8   9   10   11