genome.fa.s8121.2.7.7.80.10.50.1000.2.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: VEPZ01008121.1 Hibiscus syriacus cultivar Beakdansim tig00110674_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1116347

Tables:   1   2   3   4   

This is table  2  of  4  ( 400 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)
263414--263454	14	3.0	14	75	17	50	41	0	0	58	0.98
263568--263652	21	4.1	21	68	14	68	42	9	4	43	1.58
268319--268345	11	2.5	11	100	0	54	92	0	7	0	0.38
271104--271148	18	2.5	18	86	10	65	42	11	40	6	1.67
272266--272500	29	8.1	29	98	0	452	30	24	3	41	1.73
303390--303451	28	2.3	27	88	8	90	16	25	29	29	1.96
303408--303459	18	2.8	18	80	11	61	19	25	28	26	1.98
303392--303459	28	2.4	27	85	9	75	16	25	29	29	1.96
303474--303525	22	2.4	22	90	6	79	17	46	23	13	1.83
304392--304464	28	2.5	28	77	8	74	13	26	30	30	1.94
322637--322724	45	2.0	45	95	4	162	51	11	4	32	1.58
326354--326443	46	2.0	47	91	4	148	36	5	5	52	1.48
340295--340360	2	33.0	2	100	0	132	50	0	0	50	1.00
344043--344085	22	2.0	21	86	4	59	51	2	6	39	1.42
344749--344780	2	16.0	2	100	0	64	50	0	0	50	1.00
344888--344930	18	2.4	18	96	0	77	58	9	9	23	1.58
345931--346009	29	3.0	26	82	14	90	53	1	2	43	1.22
345961--346010	15	3.4	15	68	15	50	52	0	2	46	1.12
346214--346266	20	2.5	22	90	6	83	37	7	18	35	1.80
346352--346386	13	2.7	13	86	0	52	62	0	0	37	0.95
346348--346398	21	2.4	21	83	3	66	56	1	0	41	1.10
346348--346440	28	3.3	28	75	4	80	55	1	0	43	1.06
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
351551--351917	83	4.5	82	74	9	257	31	19	17	31	1.95
351720--351801	41	2.0	42	82	2	103	32	14	15	36	1.89
353289--353315	4	6.8	4	100	0	54	25	0	48	25	1.52
355161--355205	23	2.0	23	90	0	72	24	26	26	22	2.00
355173--355482	147	2.1	146	91	4	500	34	21	17	26	1.96
356735--356895	64	2.5	63	84	8	191	26	21	18	34	1.96
358614--358956	43	8.1	43	81	7	364	37	21	18	23	1.94
379174--379363	92	2.1	93	91	3	312	23	12	22	42	1.87
384959--385026	30	2.3	29	77	7	75	38	11	13	36	1.81
402122--402152	2	15.5	2	100	0	62	51	0	0	48	1.00
402839--402944	53	2.0	53	88	0	158	42	12	14	31	1.82
409964--410033	27	2.7	27	82	4	81	41	2	1	54	1.24
414326--414434	40	2.8	39	87	5	152	45	7	12	33	1.70
424400--424557	76	2.0	77	95	4	282	16	23	27	32	1.96
436916--437040	49	2.6	47	81	12	150	48	15	23	13	1.80
436916--437040	47	2.6	45	81	14	146	48	15	23	13	1.80
440109--440184	35	2.2	35	90	0	116	39	22	1	36	1.63
440581--440828	130	1.9	130	93	0	424	36	14	12	36	1.84
440595--440859	130	2.0	129	81	4	309	39	12	12	34	1.82
441151--441212	27	2.3	27	81	10	72	48	1	3	46	1.28
441292--441325	16	2.0	18	88	11	54	64	5	2	26	1.30
443999--444042	18	2.5	17	85	7	61	54	0	2	43	1.12
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
444972--445004	15	2.2	15	89	10	50	66	0	3	30	1.06
454469--454509	20	2.0	20	95	0	73	26	0	29	43	1.55
472506--472551	21	2.1	22	88	4	67	56	2	2	39	1.24
480110--480146	19	2.0	20	89	10	60	0	27	5	67	1.12
485555--485661	52	2.1	52	90	0	169	18	9	33	38	1.83
488164--488225	2	31.0	2	100	0	124	50	0	0	50	1.00
490270--490306	18	2.1	18	89	0	56	67	2	0	29	1.04
492156--492186	2	15.5	2	100	0	62	51	0	0	48	1.00
495368--495779	121	3.4	121	80	6	370	28	16	16	38	1.90
495480--495804	121	2.7	122	80	5	381	29	17	16	36	1.92
501876--502248	122	3.1	120	78	6	394	30	13	16	39	1.87
503254--503349	32	3.0	32	78	1	93	55	14	10	19	1.68
506534--506584	26	2.0	26	92	0	84	43	15	19	21	1.88
506644--506678	5	7.2	5	96	3	63	17	0	82	0	0.66
507135--507160	2	13.0	2	100	0	52	50	0	0	50	1.00
516841--516912	36	2.0	36	100	0	144	38	27	11	22	1.88
520217--520251	9	3.8	9	92	7	61	0	14	0	85	0.59
520213--520251	19	2.0	20	95	5	71	0	15	0	84	0.62
521745--522101	189	1.9	190	90	2	576	26	15	15	42	1.87
539771--539960	94	2.0	94	96	0	353	53	13	10	23	1.69
550311--550357	19	2.4	20	85	7	69	42	27	8	21	1.81
550367--550624	20	12.8	20	66	8	74	29	21	13	34	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
550558--550645	40	2.2	40	81	0	104	32	23	10	32	1.89
550617--550668	18	2.7	20	73	11	63	34	21	7	36	1.82
551574--551620	24	2.0	24	91	0	76	25	21	19	34	1.96
551579--551632	24	2.2	24	90	0	81	22	18	18	40	1.91
554299--554333	16	2.3	15	90	5	52	65	14	0	20	1.26
555718--555793	21	3.6	21	85	3	82	21	14	40	23	1.90
555803--555863	21	2.9	21	87	0	86	27	14	32	24	1.95
557853--557905	16	3.2	16	72	5	52	41	26	1	30	1.66
558237--558305	23	3.0	23	86	0	93	27	26	26	20	1.99
558321--558533	103	2.1	103	96	0	390	36	23	13	25	1.92
561165--561202	20	1.9	20	94	0	67	50	21	13	15	1.78
561159--561212	20	2.7	20	80	13	65	48	22	11	18	1.79
561798--561911	20	5.8	20	77	9	99	23	11	28	36	1.89
569548--569590	20	2.2	20	87	8	61	46	0	4	48	1.22
570452--570827	186	2.0	186	97	0	716	45	6	6	41	1.56
570943--570971	12	2.4	12	100	0	58	31	0	0	68	0.89
571225--571264	2	20.0	2	100	0	80	50	0	0	50	1.00
572951--573055	40	2.6	40	92	0	165	25	9	6	58	1.54
572984--573058	20	3.8	19	73	15	71	25	6	6	61	1.46
572991--573104	39	2.9	39	88	3	149	28	6	7	57	1.49
580525--580549	13	1.9	13	100	0	50	40	16	16	28	1.89
583862--583897	15	2.4	15	100	0	72	44	0	11	44	1.39
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
584833--584857	2	12.5	2	100	0	50	52	0	0	48	1.00
585146--585184	20	2.0	19	90	5	60	64	7	5	23	1.40
588241--588304	12	5.4	12	83	3	76	12	14	46	26	1.79
588241--588304	23	2.7	24	80	4	76	12	14	46	26	1.79
588302--588362	24	2.6	25	78	17	69	44	0	0	55	0.99
588466--588490	6	4.2	6	100	0	50	0	64	16	20	1.30
596559--596583	2	12.5	2	100	0	50	52	0	0	48	1.00
596742--596793	24	2.2	24	85	0	68	51	17	9	21	1.73
596762--596880	24	5.0	24	84	6	143	41	19	15	24	1.89
596765--596880	48	2.4	47	88	5	162	41	18	14	25	1.89
596798--596898	48	2.1	48	87	3	141	41	19	13	24	1.88
599411--599456	18	2.6	18	96	0	83	8	17	50	23	1.74
599881--600169	144	2.0	144	95	0	524	28	13	31	25	1.94
612426--612466	22	1.9	21	85	14	57	65	7	0	26	1.18
612583--613026	198	2.2	198	84	5	560	30	15	14	38	1.88
616181--616817	201	3.2	202	80	5	711	32	12	16	38	1.87
616816--616840	12	2.1	12	100	0	50	24	8	16	52	1.70
617274--617325	24	2.2	24	82	6	61	51	11	3	32	1.56
619684--619712	15	1.9	15	100	0	58	31	0	48	20	1.50
620103--620614	203	2.6	198	92	3	832	31	15	16	35	1.91
620757--620806	19	2.6	19	90	0	73	58	10	4	28	1.49
622476--622948	182	2.6	181	90	3	720	29	15	12	42	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
623818--623899	44	1.9	41	87	7	119	31	6	29	32	1.82
623820--623910	19	4.4	20	76	17	105	35	5	28	30	1.80
623952--624130	65	2.8	65	92	0	295	39	10	18	31	1.85
624367--624537	21	8.3	21	78	7	172	33	24	21	21	1.97
624361--624604	40	6.2	40	72	12	227	33	25	20	20	1.97
624400--624623	61	3.8	61	86	9	347	33	25	20	20	1.97
624361--624511	82	1.8	82	92	0	257	32	25	21	20	1.97
624490--624593	53	2.0	53	98	0	199	34	22	22	21	1.97
624575--624623	21	2.3	21	92	0	80	30	28	20	20	1.98
634465--634518	27	2.0	27	92	0	90	20	20	11	48	1.80

Tables:   1   2   3   4