genome.fa.s2340.2.7.7.80.10.50.1000.3.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: VEPZ01002340.1 Hibiscus syriacus cultivar Beakdansim tig00004777_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  583550

Tables:   1   2   3   

This is table  3  of  3  ( 337 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)
447572--447616	23	2.0	23	86	0	63	20	26	26	26	1.99
448502--448559	24	2.5	24	83	5	75	29	25	18	25	1.98
448545--448602	30	1.9	30	86	6	82	32	20	18	27	1.97
455957--456002	22	2.0	23	83	4	58	63	10	4	21	1.44
456367--456401	16	2.2	16	89	0	52	51	2	0	45	1.16
458367--458441	24	3.2	23	72	9	71	36	1	2	60	1.20
458598--458637	21	1.9	21	85	10	55	45	2	0	52	1.14
468799--468913	59	1.9	59	84	6	153	30	22	6	40	1.80
476772--476823	27	1.9	27	96	0	95	44	9	7	38	1.66
481028--481064	3	12.3	3	88	11	58	29	0	0	70	0.88
481029--481072	12	3.6	13	88	8	58	29	0	2	68	1.02
481035--481076	19	2.2	19	87	8	59	33	0	2	64	1.07
481149--481197	25	2.0	25	100	0	98	38	20	16	24	1.92
489193--489238	4	12.2	4	82	13	62	52	21	0	26	1.47
489201--489236	18	2.1	17	94	5	63	52	22	0	25	1.47
489582--489718	36	3.8	36	79	5	143	31	20	13	35	1.91
489876--489960	36	2.4	35	80	4	98	30	17	11	40	1.86
490245--490400	28	5.6	28	85	7	210	30	10	14	44	1.79
490247--490400	83	1.9	83	87	2	229	29	11	13	45	1.78
490236--490425	56	3.4	54	80	10	204	30	11	13	45	1.77
490987--491030	15	2.9	15	93	0	70	31	20	4	43	1.72
491287--491361	35	2.1	36	85	7	100	36	18	10	34	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
491634--491687	28	1.9	28	85	7	74	22	16	16	44	1.86
491790--492041	43	5.8	43	72	10	181	26	30	19	23	1.98
491699--492041	129	2.7	129	95	1	625	25	30	20	23	1.98
491751--491951	40	4.8	40	73	13	163	24	32	18	23	1.97
491737--492083	43	8.0	44	71	12	118	25	30	19	24	1.98
492241--492277	3	12.3	3	88	11	58	29	0	0	70	0.88
492242--492285	12	3.6	13	88	8	58	29	0	2	68	1.02
492248--492289	19	2.2	19	87	8	59	33	0	2	64	1.07
492362--492410	25	2.0	25	100	0	98	38	20	16	24	1.92
496809--496853	19	2.5	17	80	16	54	77	2	6	13	1.05
498426--498848	106	4.0	106	90	2	626	21	18	24	34	1.96
499476--499560	37	2.3	37	81	4	91	42	15	16	25	1.87
501305--501370	18	3.5	20	75	12	68	0	16	6	77	0.96
501310--501379	36	1.9	36	97	0	131	0	15	8	75	1.03
501307--501378	16	4.3	16	80	14	83	0	16	6	76	0.99
501328--501365	11	3.7	10	83	16	51	0	13	7	78	0.94
504243--504282	19	2.1	19	95	0	71	27	45	7	20	1.78
504823--504874	10	5.1	10	76	19	54	76	0	3	19	0.93
504821--504872	22	2.5	21	82	14	63	76	0	3	19	0.93
509061--509098	19	1.9	19	89	5	58	21	34	18	26	1.96
509268--509317	18	2.8	18	79	8	50	22	4	18	56	1.58
520723--521141	209	2.0	212	91	1	691	43	7	14	34	1.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
525438--525499	23	2.7	22	80	7	70	30	22	29	17	1.97
526247--526285	2	20.0	2	89	5	62	48	2	0	48	1.15
527583--527636	21	2.6	21	100	0	108	33	16	9	40	1.80
530381--530409	14	2.0	15	93	6	51	48	13	0	37	1.43
530536--530602	23	3.0	22	86	2	89	26	26	28	17	1.98
532812--532885	23	3.2	23	78	5	87	33	22	20	22	1.97
532986--533021	18	2.0	18	100	0	72	33	33	22	11	1.89
532883--533124	121	2.0	120	95	0	430	36	24	14	24	1.93
533862--533999	64	2.2	62	85	8	181	28	19	17	34	1.94
535824--535871	26	1.9	24	83	8	60	52	12	8	27	1.67
538849--538975	7	17.9	7	86	6	175	0	31	0	66	1.02
539255--539288	18	1.9	18	88	5	52	44	0	2	52	1.16
539478--539514	19	2.0	18	94	5	65	43	16	2	37	1.62
541091--541155	24	2.9	23	75	8	64	29	18	27	24	1.98
541628--541669	22	2.0	22	85	4	59	50	4	11	33	1.60
542666--542738	18	3.9	18	84	7	101	20	21	30	27	1.98
542663--542739	38	2.0	38	92	0	127	22	22	28	27	1.99
543923--543972	2	25.5	2	95	4	93	48	0	0	52	1.00
548780--548819	21	1.9	21	89	0	62	10	25	40	25	1.86
548824--548860	18	2.0	19	89	5	58	16	27	35	21	1.94
559415--559543	68	1.9	68	85	9	183	35	14	17	32	1.90
560146--560181	2	18.5	2	94	5	65	47	0	0	52	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
561277--561308	16	2.0	16	93	0	55	43	15	12	28	1.83
561711--561782	19	3.6	19	75	14	81	22	19	23	34	1.96
562384--562424	21	2.0	21	90	0	64	17	26	17	39	1.91
562421--562507	20	4.4	19	77	8	68	32	24	19	24	1.98
563367--563420	24	2.2	24	93	0	90	20	18	20	40	1.91
563611--563647	14	2.6	14	91	4	56	51	21	21	5	1.68
565961--566141	33	5.3	33	83	9	236	43	19	23	13	1.87
565989--566016	14	2.0	14	100	0	56	42	21	21	14	1.88
565974--566145	19	9.7	19	72	20	131	43	19	23	13	1.86
565941--566141	73	2.9	66	82	10	240	42	20	23	13	1.88
565934--566143	106	2.0	106	88	1	314	41	20	23	14	1.89
566150--566230	33	2.5	33	91	0	126	13	20	19	45	1.84
566175--566230	19	3.2	19	71	23	68	14	23	17	44	1.85
566180--566230	17	3.1	17	69	25	54	13	23	17	45	1.84
567746--567825	42	1.9	42	86	0	115	22	16	38	22	1.92
568289--568495	94	2.2	93	94	1	360	46	19	13	21	1.83
570204--570302	19	5.1	19	84	4	126	45	18	22	14	1.85
570309--570380	38	1.9	37	88	8	110	11	19	19	50	1.77
570309--570383	20	3.8	20	77	19	86	10	18	18	52	1.74
570922--571135	20	10.6	20	74	6	180	19	16	24	39	1.92
570924--571135	41	5.2	41	87	1	284	19	16	24	39	1.92
571144--571196	20	2.7	20	88	5	72	15	18	22	43	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
571818--572081	21	12.7	21	75	13	233	34	25	18	21	1.96
571909--572091	82	2.2	82	92	1	294	33	24	19	22	1.97
571930--572099	42	4.1	42	84	4	231	35	22	19	22	1.96
572095--572147	21	2.5	21	93	0	88	16	20	32	30	1.95
575698--575759	15	3.7	15	73	22	61	33	19	19	27	1.96
575678--575758	36	2.3	36	97	2	155	33	18	22	25	1.97
576791--576839	23	2.1	24	88	3	73	32	26	14	26	1.94
576822--576876	20	2.8	20	94	0	92	25	29	23	21	1.99
579748--579781	16	2.1	17	88	5	52	38	2	17	41	1.65

Tables:   1   2   3

The End!