genome.fa.s5349.2.7.7.80.10.50.1000.2.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: VEPZ01005349.1 Hibiscus syriacus cultivar Beakdansim tig00012136_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1796274

Tables:   1   2   3   4   5   6   7   8   

This is table  2  of  8  ( 858 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)
269131--269209	37	2.1	37	92	0	131	12	11	37	37	1.80
274021--274082	31	2.2	28	83	13	74	29	29	24	17	1.97
274504--274743	121	2.0	122	94	0	419	30	26	15	27	1.96
289863--289930	10	6.1	10	75	21	64	7	11	22	58	1.57
289861--289931	23	3.0	23	89	2	115	7	11	22	59	1.56
289998--290028	16	1.9	16	93	0	53	9	12	19	58	1.62
297007--297256	43	5.8	43	89	2	376	34	24	22	19	1.97
297007--297256	129	1.9	130	91	2	414	34	24	22	19	1.97
301169--301353	64	2.9	63	81	10	191	28	17	19	34	1.95
305293--305504	64	3.3	64	80	11	202	28	17	19	34	1.95
308734--308797	30	2.1	30	85	0	83	34	25	20	20	1.96
309392--309603	64	3.3	64	77	11	184	28	18	18	33	1.95
312700--312763	30	2.1	30	85	0	83	32	26	20	20	1.97
313444--313614	64	2.7	62	80	10	168	30	16	18	34	1.93
314460--314487	14	2.0	14	100	0	56	35	21	21	21	1.96
316736--316789	2	27.0	2	100	0	108	50	0	0	50	1.00
324357--324400	17	2.6	17	92	3	72	29	4	18	47	1.68
326799--326836	18	2.1	19	95	5	69	44	7	15	31	1.75
327024--327064	20	2.0	20	100	0	82	26	19	24	29	1.98
327144--327205	23	2.8	22	73	9	63	41	0	1	56	1.09
329546--329572	2	13.5	2	100	0	54	51	0	0	48	1.00
337189--337266	3	26.0	3	100	0	156	33	0	0	66	0.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
344054--344091	20	1.9	20	94	0	67	31	34	15	18	1.92
352413--352442	2	15.0	2	100	0	60	50	0	0	50	1.00
352873--352910	20	1.9	20	94	0	67	31	34	15	18	1.92
353655--353692	20	1.9	20	94	0	67	31	34	15	18	1.92
353770--353815	18	2.6	18	96	3	85	28	19	17	34	1.94
353705--353899	83	2.4	82	85	6	252	27	23	17	31	1.97
356779--356813	2	17.5	2	87	0	52	0	48	0	51	1.00
361747--362541	397	2.0	396	92	3	1310	27	17	15	38	1.90
375398--375465	10	6.1	10	75	21	64	7	11	22	58	1.57
375396--375466	23	3.0	23	89	2	115	7	11	22	59	1.56
375531--375563	16	2.1	16	94	0	57	9	12	21	57	1.62
377079--377152	36	2.1	36	97	2	141	43	12	16	28	1.83
377449--377698	41	6.1	41	94	0	430	29	22	20	27	1.99
377777--377801	6	4.2	6	100	0	50	36	48	16	0	1.46
381436--381494	29	2.0	29	100	0	118	23	13	13	49	1.78
384406--384473	10	6.1	10	75	21	64	7	11	22	58	1.57
384404--384474	23	3.0	23	89	2	115	7	11	22	59	1.56
384539--384571	16	2.1	16	94	0	57	9	12	21	57	1.62
390534--390571	19	2.0	19	94	0	67	36	5	13	44	1.66
391753--391792	20	2.1	19	90	4	62	55	0	12	32	1.38
394116--394179	32	2.0	32	96	0	119	34	12	29	23	1.92
397141--397255	61	1.9	61	87	0	167	29	26	18	25	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
400501--400613	60	1.9	60	86	0	163	28	13	20	38	1.90
400502--400626	60	2.1	60	83	0	151	28	14	18	38	1.90
401034--401059	2	13.0	2	100	0	52	50	0	0	50	1.00
404154--404456	149	2.0	149	99	0	597	30	15	18	35	1.92
406021--406063	3	14.3	3	100	0	86	34	0	0	65	0.93
406157--406187	3	10.3	3	100	0	62	35	0	0	64	0.94
407599--407641	14	3.1	14	83	3	52	62	18	6	11	1.50
407820--407875	24	2.6	20	75	20	58	60	19	8	10	1.55
407844--407889	14	3.2	15	81	9	51	58	17	10	13	1.62
407810--407898	34	2.6	34	87	5	119	59	17	10	12	1.60
407820--407898	10	7.2	10	73	23	61	59	18	10	11	1.59
407834--407920	24	3.7	24	92	3	140	57	14	11	16	1.65
419568--419628	32	1.9	32	86	6	88	22	0	19	57	1.41
420523--420561	18	2.3	18	86	8	55	35	0	10	53	1.35
420545--420611	32	2.1	32	83	5	82	23	0	16	59	1.37
420585--420666	22	3.8	22	91	1	121	20	2	20	56	1.54
421732--421901	30	5.9	30	79	13	212	28	4	21	45	1.72
421774--421871	27	3.5	27	81	13	135	27	6	20	45	1.74
421744--421901	57	2.8	57	98	0	307	27	5	21	46	1.72
423222--423280	31	1.9	31	92	0	100	44	8	5	42	1.57
423535--423605	2	35.5	2	94	0	124	0	49	0	50	1.00
426740--426834	27	3.6	27	92	2	158	29	12	14	43	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
430554--430648	27	3.6	27	92	2	158	29	12	16	41	1.86
432253--432299	20	2.4	20	96	3	87	8	17	0	74	1.05
438691--438740	2	25.0	2	100	0	100	50	0	0	50	1.00
443101--443158	25	2.4	25	86	11	84	22	1	3	72	1.09
445789--445821	16	2.1	16	88	5	50	72	3	0	24	0.98
454172--454333	65	2.5	65	82	7	179	30	16	21	30	1.96
456912--457011	23	4.6	21	74	17	80	30	20	21	29	1.98
456891--457011	44	2.8	43	78	10	122	29	19	22	28	1.98
460673--460717	22	2.1	22	83	4	56	37	11	2	48	1.51
462641--462717	17	4.6	16	73	19	59	71	1	9	18	1.19
464997--465022	2	13.0	2	100	0	52	50	0	0	50	1.00
465764--465935	92	1.9	92	92	0	290	26	23	13	37	1.91
466001--466268	91	2.9	91	88	4	398	23	23	17	36	1.94
466604--466713	30	3.7	30	92	0	175	30	14	25	30	1.95
466569--466951	66	5.9	65	78	9	381	36	14	22	27	1.92
466770--466812	21	2.1	20	82	4	50	39	13	25	20	1.90
466824--467012	36	5.4	34	75	15	172	39	13	17	28	1.88
467194--467298	20	5.0	21	68	13	74	28	22	21	26	1.99
467187--467300	42	2.7	42	86	6	169	28	22	21	27	1.99
467337--467464	43	3.0	43	92	0	220	27	33	14	25	1.94
469426--469493	8	9.6	7	79	17	52	4	19	0	76	0.95
469424--469480	6	8.5	6	82	17	60	3	19	0	77	0.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
469424--469490	21	3.2	20	83	14	82	4	17	0	77	0.93
469427--469526	33	2.9	33	76	19	89	4	18	2	76	1.04
469487--469511	10	2.5	10	100	0	50	0	16	8	76	1.02
469424--469527	41	2.6	42	80	10	103	3	17	1	76	1.02
469771--469819	2	24.5	2	100	0	98	51	0	0	48	1.00
472244--472285	18	2.3	18	84	8	50	42	2	2	52	1.27
473622--473647	2	13.0	2	100	0	52	50	0	0	50	1.00
475453--475496	17	2.6	17	92	3	72	29	4	18	47	1.68
476585--476645	2	30.5	2	100	0	122	50	0	0	49	1.00
480031--480069	7	5.6	7	81	0	51	51	0	5	43	1.24
480025--480068	21	2.1	21	91	0	70	50	2	6	40	1.42
482302--482399	48	2.0	49	86	4	135	60	12	12	15	1.60
483043--483140	48	2.0	49	86	4	135	60	12	12	15	1.60
483150--483201	2	26.0	2	100	0	104	50	0	0	50	1.00
488837--489062	121	1.9	122	93	0	391	30	26	15	27	1.96
490070--490096	12	2.2	12	100	0	54	51	7	0	40	1.30
491817--491934	24	4.9	24	86	5	148	39	20	14	25	1.90
491796--491948	72	2.1	72	80	2	182	45	18	11	24	1.83
496687--496756	18	3.9	18	86	0	104	14	21	45	18	1.84
507009--507070	30	2.1	30	100	0	124	16	32	3	48	1.62
510270--510359	39	2.3	37	78	16	94	46	1	2	50	1.21
512751--513059	28	10.9	28	88	3	467	42	15	4	37	1.66
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
513067--513162	29	3.3	29	85	0	129	38	15	4	41	1.67
514634--514663	15	1.9	16	93	6	53	30	23	20	26	1.98
517271--517552	28	10.2	28	87	6	346	42	15	3	38	1.65
517271--517552	84	3.4	84	86	5	394	42	15	3	38	1.65
517544--517639	29	3.3	29	89	0	147	40	16	3	39	1.64
519032--519159	59	2.2	59	79	12	138	28	14	17	39	1.89
521069--521155	42	2.0	43	93	2	149	34	35	11	18	1.87
521285--521394	24	4.6	24	85	6	143	40	19	15	24	1.90
521312--521412	48	2.1	48	85	3	132	41	19	14	23	1.89
523912--523969	8	7.5	8	74	18	52	22	27	34	15	1.94

Tables:   1   2   3   4   5   6   7   8