genome.fa.s7963.2.7.7.80.10.50.1000.3.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: VEPZ01007963.1 Hibiscus syriacus cultivar Beakdansim tig00110392_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1627826

Tables:   1   2   3   4   5   6   7   

This is table  3  of  7  ( 819 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)
396547--396577	13	2.3	14	94	5	55	32	3	0	64	1.09
397515--397544	15	2.1	15	93	6	53	36	0	0	63	0.95
397598--397626	4	7.2	4	100	0	58	75	0	0	24	0.80
397975--398071	45	2.2	44	84	1	122	19	10	28	41	1.84
401015--401348	27	11.8	27	65	15	95	43	3	14	38	1.64
401035--401335	116	2.6	115	92	3	480	42	3	14	38	1.63
409582--409626	17	2.5	19	75	20	51	68	0	24	6	1.13
410429--410466	18	2.1	18	100	0	76	42	21	18	18	1.90
413083--413122	2	20.0	2	100	0	80	50	0	0	50	1.00
413573--413650	20	3.8	20	80	6	84	43	15	12	28	1.83
413571--413628	22	2.8	20	84	5	71	50	15	12	22	1.77
420454--420665	93	2.3	94	84	3	268	41	12	20	25	1.87
421002--421222	54	4.1	54	95	0	388	32	11	18	37	1.87
427516--427714	93	2.1	95	85	3	260	38	12	21	27	1.89
428050--428217	54	3.1	55	87	5	234	35	13	15	35	1.87
428613--428675	23	2.7	23	90	0	90	34	19	19	26	1.95
433130--433185	22	2.5	22	97	2	103	44	7	12	35	1.70
433423--433694	140	1.9	140	92	0	454	33	19	12	34	1.89
434210--434261	25	2.1	23	82	10	59	69	0	11	19	1.18
441710--441761	27	1.9	27	81	14	63	69	0	13	17	1.19
441690--441755	13	5.2	13	70	20	50	69	0	10	19	1.17
442330--442360	15	2.1	15	94	5	55	61	0	0	38	0.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
444071--444325	135	1.9	136	92	3	433	25	21	12	41	1.88
448210--448261	24	2.2	25	80	13	65	34	21	23	21	1.97
452301--452342	21	2.0	21	90	9	68	28	28	19	23	1.98
452455--452535	34	2.3	36	87	4	112	19	24	37	18	1.94
453114--453727	306	2.0	306	99	0	1201	32	19	17	31	1.95
456323--456424	21	4.9	21	91	0	159	25	30	18	25	1.98
468010--468049	21	1.9	21	100	0	80	30	5	40	25	1.77
471267--471323	29	2.0	29	80	19	66	52	8	7	31	1.59
479639--479674	17	2.1	17	89	0	54	38	0	30	30	1.58
479699--479736	18	2.1	18	90	0	58	63	0	21	15	1.31
479952--479993	17	2.3	18	80	19	52	0	16	4	78	0.91
479951--479993	6	7.2	6	79	10	52	0	16	4	79	0.90
488882--488933	26	2.0	26	88	7	79	36	19	23	21	1.95
488846--488968	63	2.0	63	85	0	165	36	18	22	21	1.95
490020--490190	49	3.7	47	73	10	154	42	9	2	45	1.50
490932--491103	94	1.8	94	85	5	240	22	22	20	34	1.97
509077--509109	8	4.1	8	92	0	57	15	21	24	39	1.91
509190--509214	2	12.5	2	100	0	50	52	0	0	48	1.00
510512--510580	19	3.5	20	77	11	72	46	1	1	50	1.19
513724--513771	23	2.1	23	92	0	78	35	10	18	35	1.85
514244--514316	23	3.2	23	84	0	83	39	20	5	34	1.76
514685--514747	23	2.7	23	90	0	90	38	22	4	34	1.75
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
514081--515383	428	3.0	430	96	0	2409	39	12	7	40	1.72
515103--515175	23	3.2	23	90	0	110	36	21	6	34	1.81
515522--515586	25	2.6	25	97	0	121	36	12	10	40	1.78
518008--519063	183	5.8	183	94	1	1728	33	16	14	36	1.88
520268--520354	12	7.2	12	89	0	111	22	33	8	35	1.84
520264--520350	18	4.8	18	88	0	111	24	33	6	35	1.82
520292--520362	12	5.4	12	75	18	61	19	33	9	36	1.85
520280--520367	18	4.6	18	75	15	77	20	32	9	37	1.84
520268--520354	6	14.5	6	85	0	93	22	33	8	35	1.84
521827--523380	197	7.9	199	95	2	2773	31	17	14	36	1.90
523460--523520	19	3.3	18	88	2	59	52	11	1	34	1.47
523472--523520	19	2.6	19	96	0	89	55	10	2	32	1.45
527509--527561	26	2.0	26	100	0	106	33	15	15	35	1.88
528327--528437	54	2.0	56	93	5	192	28	14	14	42	1.85
530812--530851	21	1.9	21	89	0	62	25	40	25	10	1.86
534583--534615	13	2.5	13	100	0	66	18	27	21	33	1.96
535027--535086	32	1.9	32	89	3	95	23	46	0	30	1.52
535118--535180	20	3.1	20	88	6	83	17	30	11	41	1.84
537188--537240	24	2.2	24	83	6	63	26	7	13	52	1.66
537385--537440	20	2.8	19	81	10	67	19	16	10	53	1.71
537565--537611	20	2.3	20	89	10	78	17	17	10	55	1.69
537352--537823	180	2.6	181	90	2	709	26	17	13	41	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
537890--538384	229	2.2	227	94	3	870	38	7	8	45	1.62
539402--539449	23	2.1	23	88	0	69	35	10	18	35	1.85
539832--540286	181	2.5	182	92	0	759	27	16	12	43	1.84
540157--540398	112	2.2	112	89	1	360	26	15	13	44	1.84
539976--540692	294	2.4	293	92	0	1175	27	16	13	43	1.84
540451--540803	112	3.2	112	94	0	591	25	15	14	44	1.84
540157--541097	405	2.3	405	92	0	1544	26	15	13	44	1.84
540856--541097	111	2.2	113	86	3	328	26	14	14	44	1.83
539976--542090	699	3.0	698	92	1	3466	26	15	13	44	1.84
540563--541390	294	2.8	293	90	2	1315	26	15	14	43	1.84
540844--541796	405	2.3	404	91	1	1507	26	15	13	44	1.84
541150--541502	112	3.2	112	89	0	501	26	15	14	44	1.84
541249--542266	294	3.5	294	94	0	1734	26	15	13	44	1.84
541555--541796	112	2.2	112	88	0	367	24	15	14	45	1.84
541836--542090	112	2.3	112	88	0	368	25	14	14	45	1.83
541961--542452	182	2.7	182	89	2	747	27	15	13	43	1.84
540969--542680	588	2.9	584	79	9	2092	26	15	13	44	1.83
542326--542789	112	4.1	112	91	2	707	25	14	14	46	1.82
542326--542789	225	2.1	224	92	0	775	25	14	14	46	1.82
546355--546406	20	2.6	20	81	0	59	36	17	21	25	1.94
547804--547980	44	4.0	44	90	0	264	41	11	21	25	1.86
550287--550354	3	22.7	3	96	0	127	64	0	1	33	1.02
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
550668--551227	113	5.0	113	92	1	820	28	20	13	37	1.90
551961--552260	84	3.6	84	96	0	550	36	22	14	27	1.92
553398--553433	10	3.7	10	85	7	56	0	13	0	86	0.58
553397--553433	19	1.9	19	100	0	74	0	16	0	83	0.64
560693--560724	15	2.2	15	94	5	57	43	3	6	46	1.44
565892--565977	3	28.3	3	86	11	106	66	0	2	31	1.04
572179--572301	58	2.1	57	81	14	137	36	16	10	36	1.83
572675--572718	20	2.3	19	88	4	61	36	4	0	59	1.18
572736--572782	24	2.0	24	87	8	69	38	8	14	38	1.77
573111--573139	2	14.5	2	100	0	58	48	0	0	51	1.00
574121--574153	16	2.1	16	88	5	50	48	0	6	45	1.27
575222--575256	18	1.9	18	88	0	52	2	11	5	80	1.00
575222--575260	20	2.1	18	85	9	51	2	12	7	76	1.09
575645--575738	3	30.7	3	80	8	100	59	0	2	38	1.09
575987--576772	113	6.9	113	96	1	1375	29	20	12	37	1.90
575987--576771	336	2.3	340	94	2	1382	29	20	12	37	1.90
576592--576928	181	1.9	181	96	1	631	28	20	14	36	1.91
576705--576840	68	2.0	68	100	0	272	29	17	19	33	1.95
576367--577179	407	2.0	406	96	1	1504	29	19	14	36	1.91
576773--577282	113	4.5	113	95	1	896	28	19	14	37	1.91
576479--577066	294	2.0	294	97	0	1115	29	19	14	36	1.92
577681--577734	22	2.5	21	82	5	72	37	16	12	33	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
579173--579354	83	2.2	83	92	2	303	37	20	13	28	1.91
587300--587331	2	16.0	2	100	0	64	50	0	0	50	1.00
587910--587944	17	1.9	19	88	11	56	2	11	5	80	1.00
588334--588430	3	31.7	3	80	8	106	59	0	2	38	1.09
588526--588563	20	1.9	20	94	0	67	39	21	2	36	1.67
593283--593329	20	2.4	19	80	16	51	51	0	0	48	1.00
596673--596775	54	1.9	54	86	2	145	40	8	13	36	1.76
601410--601437	2	14.0	2	100	0	56	0	50	0	50	1.00
604531--604573	2	21.5	2	100	0	86	51	0	0	48	1.00
610505--610556	21	2.5	21	93	0	86	21	3	28	46	1.69

Tables:   1   2   3   4   5   6   7