genome.fa.s8362.2.7.7.80.10.50.1000.2.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: VEPZ01008362.1 Hibiscus syriacus cultivar Beakdansim tig00111101_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  636979

Tables:   1   2   3   

This is table  2  of  3  ( 270 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)
269401--269462	29	2.2	29	80	11	74	62	0	6	30	1.20
269924--269961	20	1.9	20	88	0	58	21	26	10	42	1.85
271615--271696	41	2.0	41	92	0	137	18	29	25	26	1.98
281788--281841	25	2.2	25	96	0	99	42	0	0	57	0.98
281834--281871	20	1.9	20	89	10	60	18	10	31	39	1.85
291989--292042	28	1.9	28	88	0	81	25	24	12	37	1.91
300584--300642	22	2.7	22	94	0	100	35	13	28	22	1.92
302699--302752	24	2.2	24	96	0	99	46	9	18	25	1.79
304880--304914	2	17.5	2	100	0	70	48	0	0	51	1.00
307128--307153	2	13.0	2	100	0	52	50	0	0	50	1.00
310523--310557	18	2.0	17	88	5	52	40	0	0	60	0.97
311110--311196	31	2.8	30	83	10	104	54	2	1	42	1.20
311114--311163	19	2.5	21	84	9	70	56	0	2	42	1.11
311109--311172	20	3.3	19	71	18	51	53	0	1	45	1.10
312285--312343	31	2.0	29	83	6	73	28	10	5	55	1.54
314351--314454	53	2.0	53	90	5	167	30	16	10	42	1.82
314881--315260	186	2.0	185	92	0	643	42	3	8	45	1.51
316334--316485	75	2.0	75	97	0	286	38	9	9	42	1.69
328288--328560	43	6.3	44	73	9	195	50	5	18	24	1.68
328294--328531	130	1.8	130	84	1	325	50	5	19	23	1.68
328283--328610	130	2.5	129	79	6	311	51	6	17	24	1.68
329426--329470	16	2.8	17	77	16	51	51	0	4	44	1.21
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
334656--334687	17	1.9	16	93	6	55	0	59	31	9	1.29
334657--334704	20	2.4	20	82	0	60	2	58	29	10	1.43
337045--337090	19	2.5	17	80	16	56	45	10	23	19	1.82
351028--351070	2	21.5	2	90	0	68	46	2	2	48	1.27
362486--362521	18	2.0	18	89	10	56	38	5	13	41	1.68
365019--365075	30	1.9	30	92	0	96	36	35	14	14	1.86
365385--365429	23	1.9	24	90	4	74	48	17	4	28	1.66
377050--377098	22	2.2	22	88	0	71	53	0	0	46	1.00
377083--377136	23	2.3	23	87	6	74	53	1	1	42	1.22
377050--377171	18	6.9	18	69	15	76	50	0	0	47	1.12
379171--379215	17	2.7	16	86	10	63	42	0	6	51	1.28
379781--379805	3	8.3	3	100	0	50	64	0	0	36	0.94
388179--388207	2	15.0	2	92	7	51	51	0	0	48	1.00
390461--390486	13	2.0	13	100	0	52	23	15	15	46	1.83
397860--397884	2	12.5	2	100	0	50	48	0	0	52	1.00
406115--406139	13	1.9	13	100	0	50	44	0	0	56	0.99
407023--407318	163	1.8	162	83	3	398	38	8	20	33	1.82
407294--407344	25	2.0	25	100	0	102	43	11	13	31	1.80
414727--414790	26	2.5	26	73	14	71	39	9	6	45	1.62
414843--414882	14	3.1	13	86	10	55	55	0	2	42	1.13
416802--416868	30	2.2	30	86	0	98	37	1	1	59	1.16
416872--416935	27	2.4	27	97	0	119	43	9	6	40	1.62
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
420619--420652	15	2.4	15	90	9	54	47	0	2	50	1.16
424531--424671	71	2.0	70	98	1	273	28	21	12	36	1.91
439643--439684	22	2.0	22	85	4	59	42	0	2	54	1.13
456721--456750	11	2.7	11	94	0	51	46	0	16	36	1.47
456774--456806	8	4.1	8	96	0	57	33	0	0	66	0.92
458835--458953	35	3.5	34	82	6	134	11	14	36	37	1.83
460053--460113	3	20.3	3	100	0	122	67	0	0	32	0.91
463603--463694	31	3.0	30	71	14	82	28	17	19	34	1.94
472262--472291	2	15.0	2	92	0	51	46	0	0	53	1.00
476790--476848	21	2.7	22	76	5	75	22	25	20	32	1.98
476857--476970	20	5.7	20	89	0	156	25	26	23	24	2.00
477145--477187	22	2.0	22	95	0	77	23	41	16	18	1.89
479356--479405	18	2.8	18	96	0	91	32	18	6	44	1.74
481573--481634	14	4.3	14	73	6	52	38	1	14	45	1.55
481733--481786	20	2.7	20	79	0	63	42	25	18	12	1.86
481789--481971	94	1.9	94	84	2	242	24	19	21	34	1.96
481829--482013	20	9.9	20	73	13	160	25	18	22	34	1.96
481870--482013	54	2.7	54	88	0	216	23	16	23	36	1.94
481984--482253	140	1.9	140	97	0	513	42	15	13	28	1.85
482313--482347	18	1.9	18	94	0	61	20	2	22	54	1.58
482326--482354	12	2.5	12	94	5	51	17	6	20	55	1.65
484384--484419	14	2.6	14	95	0	63	5	19	22	52	1.66
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
484597--484650	24	2.2	24	93	0	90	40	20	18	20	1.91
485473--485543	20	3.5	20	77	7	72	25	19	22	32	1.98
486195--486230	2	18.0	2	100	0	72	0	50	0	50	1.00
491801--491865	27	2.4	27	94	0	112	41	13	12	32	1.82
493380--493455	31	2.5	31	82	0	98	55	6	6	31	1.51
497016--497139	60	2.1	60	93	3	214	37	17	20	24	1.94
508894--508965	15	4.9	15	75	14	71	63	1	2	31	1.17
508938--509013	27	2.8	28	75	18	72	68	3	5	22	1.27
509112--509178	27	2.5	25	79	11	71	59	0	4	35	1.18
509127--509272	32	5.0	28	69	24	74	63	0	6	29	1.25
509196--509264	31	2.4	28	81	13	77	69	1	4	24	1.15
510309--510344	2	18.5	2	88	5	56	52	0	0	47	1.00
510299--510337	12	3.2	12	88	0	51	58	2	0	38	1.12
516792--517147	178	2.0	178	97	2	671	49	10	12	26	1.74
517337--517388	20	2.5	21	84	3	70	38	19	23	19	1.93
517374--517511	41	3.4	41	81	6	136	33	23	19	23	1.97
517377--517491	20	5.7	20	80	6	115	30	26	20	23	1.98
518216--518269	24	2.2	24	90	0	81	22	16	20	40	1.91
518444--518468	12	2.1	12	100	0	50	72	0	28	0	0.86
520747--520873	33	3.8	33	89	4	202	43	19	22	14	1.87
520747--520877	19	7.7	19	66	23	94	43	19	22	13	1.87
520748--520880	66	2.0	66	97	0	248	42	19	22	15	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
520882--520963	33	2.4	34	91	2	130	13	24	18	43	1.85
521068--521103	13	2.6	14	86	8	56	47	25	0	27	1.52
521727--522069	171	2.0	170	99	0	677	27	23	22	26	2.00
522735--522915	88	2.0	87	85	10	240	46	17	12	22	1.82
524588--524686	19	5.1	19	84	4	126	43	19	23	14	1.87
524682--524729	20	2.5	19	77	12	53	10	16	27	45	1.80
525286--525339	20	2.7	20	97	0	99	25	18	24	31	1.97
525681--525747	33	2.0	33	100	0	134	32	35	2	28	1.72
533775--533827	21	2.4	21	87	6	70	39	13	1	45	1.54
533819--533861	2	21.5	2	95	0	77	46	0	2	51	1.13
534043--534118	30	2.5	30	85	4	91	13	5	17	64	1.45
536037--536080	21	2.1	21	83	8	54	13	4	54	27	1.58
543222--543278	18	3.4	17	72	18	57	54	10	0	35	1.35
543194--543246	22	2.5	21	73	11	54	52	11	0	35	1.37
543217--543378	32	5.4	32	78	18	186	53	8	0	37	1.32
543240--543294	14	3.6	14	73	17	56	56	5	0	38	1.23
543271--543314	22	2.0	22	82	8	54	54	4	0	40	1.21
543249--543357	54	2.0	54	94	0	191	51	10	0	38	1.36
543281--543323	22	2.0	22	95	0	77	51	11	0	37	1.39
543157--543380	86	2.7	85	90	6	343	53	9	0	36	1.34
543283--543331	22	2.2	22	85	3	62	55	12	0	32	1.37
543326--543393	14	4.5	14	74	15	64	57	2	0	39	1.14
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
546705--546735	14	2.2	14	94	0	53	45	19	6	29	1.75
547166--547217	20	2.6	20	96	0	95	40	25	25	9	1.85
547206--547259	21	2.6	21	93	0	99	31	29	14	24	1.95
547163--547267	21	5.1	21	83	2	88	37	26	18	18	1.93
552392--552432	2	20.5	2	89	0	64	51	0	2	46	1.14
554400--554495	35	2.6	37	80	6	106	43	5	5	45	1.48
554395--554723	37	8.8	36	73	12	211	44	5	3	46	1.45
554482--554542	29	2.0	31	87	6	90	45	1	3	49	1.28
555466--555531	33	2.0	33	100	0	132	24	27	18	30	1.98
555499--555884	81	4.7	84	79	6	473	22	21	25	30	1.99

Tables:   1   2   3