genome.fa.s8497.2.7.7.80.10.50.1000.2.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: VEPZ01008497.1 Hibiscus syriacus cultivar Beakdansim tig00111342_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1504768

Tables:   1   2   3   4   5   6   

This is table  2  of  6  ( 719 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)
271233--271281	19	2.6	19	80	6	55	24	30	26	18	1.98
273478--273953	237	2.0	236	93	0	817	26	17	20	35	1.94
295206--295247	19	2.2	19	95	0	75	33	0	14	52	1.42
308068--308110	11	3.0	16	68	31	51	32	25	11	30	1.91
311686--312074	130	2.9	134	80	6	441	24	17	29	27	1.98
312978--313035	23	2.6	22	75	8	55	8	15	0	75	1.02
331980--332026	18	2.8	18	84	9	55	46	2	0	51	1.13
331699--333345	414	4.0	415	90	2	2471	34	17	16	31	1.92
333217--333271	28	1.9	29	85	3	76	50	1	0	47	1.11
336109--336158	18	2.8	18	82	11	66	58	10	12	20	1.62
338625--338651	2	13.5	2	100	0	54	48	0	0	51	1.00
345233--345293	25	2.4	24	80	17	70	75	0	0	24	0.80
345239--345294	21	2.6	22	81	10	62	73	0	0	26	0.84
345234--345294	31	2.0	30	90	9	97	73	0	0	26	0.83
345288--345404	38	3.1	37	82	4	137	45	8	2	43	1.48
345296--345495	99	2.0	98	82	7	244	44	6	1	48	1.36
345383--345430	25	1.9	25	91	0	78	45	2	0	52	1.12
345335--345461	61	2.1	61	83	7	159	44	5	0	49	1.31
345391--345519	39	3.3	38	88	5	170	48	3	0	48	1.20
349665--349702	12	3.3	12	78	14	53	10	52	5	31	1.58
353121--353207	35	2.5	34	80	12	97	55	10	8	26	1.61
353429--353481	9	5.9	9	78	8	54	9	35	20	33	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
355275--355607	111	3.0	111	94	0	594	43	12	8	36	1.72
355875--355972	50	2.0	49	80	8	108	24	28	30	16	1.96
357932--358013	41	2.0	41	90	0	128	57	10	6	25	1.56
362674--362716	20	2.2	20	91	0	68	16	13	9	60	1.58
367697--367748	2	26.0	2	100	0	104	50	0	0	50	1.00
367915--367947	14	2.4	14	94	0	57	24	39	30	6	1.79
367953--368009	10	5.4	10	74	12	51	26	26	40	7	1.81
367929--368013	33	2.6	33	92	0	134	25	28	37	8	1.85
368015--368071	29	2.0	29	89	0	87	17	33	28	21	1.96
368167--368220	20	2.7	20	94	0	90	12	24	37	25	1.91
368207--368248	14	3.0	14	92	0	75	9	28	40	21	1.84
368546--368634	29	3.1	29	93	0	160	17	35	30	15	1.92
373807--373882	30	2.5	30	87	8	102	32	22	3	40	1.72
390605--390726	54	2.3	49	81	12	120	77	0	14	8	0.99
390608--390726	26	4.6	25	72	18	91	77	0	15	7	0.98
390561--390723	14	11.9	14	69	21	55	76	0	14	8	1.06
390608--390732	17	7.7	17	73	17	88	76	0	16	7	0.99
390561--390732	91	1.9	91	82	9	217	76	0	15	8	1.05
390560--390738	45	4.0	43	72	17	123	75	0	15	8	1.05
392065--392414	51	6.7	51	87	6	425	29	16	26	28	1.97
392060--392474	51	7.9	53	85	7	408	29	16	25	28	1.97
392076--392502	110	4.0	108	82	8	323	29	16	25	28	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
400854--400893	12	3.6	12	83	12	50	45	5	0	50	1.23
400880--401221	22	15.6	22	90	0	515	41	0	10	47	1.40
404478--404542	2	32.5	2	100	0	130	50	0	0	49	1.00
404526--404780	38	7.0	35	73	17	157	43	2	7	45	1.46
404556--404764	38	5.8	36	77	17	186	44	2	5	46	1.42
404637--404697	32	1.9	32	100	0	122	49	4	4	40	1.46
404555--404724	70	2.3	74	80	11	197	45	2	5	45	1.41
404814--404895	20	4.0	20	73	20	64	15	1	2	80	0.88
404820--404892	11	6.5	11	83	14	87	16	1	1	80	0.85
404833--404881	5	9.4	5	83	16	64	18	0	0	81	0.69
406051--406102	27	1.9	26	84	7	68	15	13	0	71	1.15
406059--406117	26	2.2	27	82	8	68	11	15	0	72	1.11
406143--406202	32	1.9	32	83	10	79	10	10	6	73	1.25
406192--406236	20	2.2	21	84	11	58	28	0	2	68	1.01
412888--412938	20	2.8	19	80	13	63	21	27	11	39	1.88
412901--412938	20	1.9	20	94	0	67	21	28	13	36	1.91
415567--415759	36	5.4	36	85	1	237	32	20	23	23	1.98
417241--417376	35	3.9	35	82	5	170	37	19	22	19	1.94
417238--417373	68	2.0	68	91	0	218	37	19	23	19	1.94
418531--418774	43	5.7	43	86	1	319	25	22	23	28	1.99
418528--418820	43	6.8	43	82	5	173	27	21	22	27	1.99
418510--418823	86	3.7	85	82	5	310	27	21	23	27	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
418527--418822	129	2.3	130	80	4	357	27	21	22	28	1.99
418970--419028	21	2.8	21	84	0	73	55	20	5	18	1.61
421951--422029	41	1.9	41	82	7	97	30	16	18	34	1.94
422005--422199	85	2.3	86	80	8	222	35	15	18	30	1.92
421959--422322	41	8.8	41	68	10	152	32	17	19	31	1.94
422005--422302	81	3.6	84	79	6	275	31	16	19	32	1.94
426293--426328	3	12.0	3	88	11	56	0	33	0	66	0.92
427524--427593	19	3.6	19	75	11	70	32	0	2	64	1.08
427513--427580	16	4.1	16	73	17	57	30	0	2	66	1.07
428565--428596	2	16.0	2	100	0	64	50	0	0	50	1.00
433464--433494	15	2.1	15	100	0	62	54	0	25	19	1.44
436251--436334	30	2.8	30	78	3	89	35	5	46	11	1.65
436853--436957	54	1.9	54	90	0	165	42	19	12	25	1.86
436953--436994	4	10.5	4	94	0	75	50	23	0	26	1.50
459439--459533	35	2.6	36	76	6	102	45	5	6	43	1.52
459417--459533	37	3.2	36	77	8	112	44	5	7	42	1.55
462047--462080	17	1.9	18	88	5	52	5	11	8	73	1.24
462692--462737	19	2.4	19	96	0	83	10	13	10	65	1.48
466105--466865	84	9.2	83	80	4	840	29	25	21	24	1.99
466105--466911	249	3.3	249	90	1	1187	29	25	20	24	1.99
466124--466865	165	4.5	164	83	3	825	29	25	21	24	1.99
467531--467694	37	4.4	35	72	12	107	43	5	8	42	1.58
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
469017--469069	9	5.4	9	76	14	52	16	3	1	77	1.01
471268--471306	19	2.0	20	85	5	53	46	5	0	48	1.24
472987--473161	41	4.2	42	94	2	318	21	22	25	31	1.98
473004--473157	21	7.4	21	67	19	108	20	22	24	32	1.98
473239--473296	24	2.7	21	82	17	75	27	41	25	5	1.76
473254--473299	24	1.9	24	100	0	92	26	34	32	6	1.82
475357--475507	75	2.0	75	94	0	266	28	17	23	31	1.97
477782--477940	84	1.9	84	87	3	232	44	8	4	43	1.54
488888--489045	77	2.0	77	89	6	239	55	8	10	25	1.61
492185--492236	26	2.0	26	81	7	61	25	3	7	63	1.38
493886--493941	26	2.2	26	90	0	85	28	0	16	55	1.41
493895--493949	26	2.1	26	100	0	110	21	0	20	58	1.40
510309--510415	42	2.6	41	83	7	117	43	11	18	26	1.83
510332--510415	40	2.0	40	86	4	114	45	10	17	26	1.81
512325--512360	18	2.0	18	100	0	72	27	0	11	61	1.30
513001--513056	26	2.2	25	84	12	71	46	1	14	37	1.55
519588--519649	21	3.0	21	92	0	97	35	24	19	20	1.96
526609--526679	27	2.6	27	76	12	74	22	9	18	49	1.77
527661--527707	24	2.0	24	82	0	58	23	21	31	23	1.98
529807--530009	51	4.0	51	87	1	282	49	6	2	41	1.43
530011--530050	17	2.3	18	91	4	64	62	0	0	37	0.95
530544--530600	27	2.1	27	100	0	114	47	14	10	28	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
531063--531102	22	1.9	21	90	10	64	30	20	22	27	1.98
537768--537812	23	2.0	23	86	8	65	22	6	2	68	1.24
548755--548901	60	2.5	60	74	3	136	35	16	12	35	1.87
548891--548965	39	2.0	37	86	5	105	36	17	6	40	1.76
550225--550282	14	4.4	14	77	16	70	13	12	15	58	1.63
550588--550617	10	3.0	10	95	0	51	10	13	20	56	1.65
550569--550614	14	3.6	14	77	22	64	6	15	21	56	1.61
552096--552211	15	7.6	15	72	14	60	47	0	0	52	1.00
552167--552214	2	25.5	2	87	12	75	47	0	0	52	1.00
552096--552211	17	6.9	17	72	16	98	47	0	0	52	1.00

Tables:   1   2   3   4   5   6