genome.fa.s9461.2.7.7.80.10.50.1000.2.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: VEPZ01009461.1 Hibiscus syriacus cultivar Beakdansim tig00113724_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2346588

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   

This is table  2  of  12  ( 1395 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)
233739--233776	20	1.9	20	94	0	67	36	28	13	21	1.91
234267--234345	32	2.5	32	82	0	104	40	8	16	34	1.80
234415--234487	32	2.3	32	90	0	119	46	5	13	34	1.67
234265--234615	142	2.5	139	88	4	510	36	9	16	37	1.81
234545--234647	32	3.2	32	88	0	143	41	7	13	36	1.73
236935--237050	52	2.2	52	90	3	187	32	22	13	31	1.93
245241--245279	20	2.0	20	84	0	51	23	7	23	46	1.78
245435--245517	21	3.8	22	78	12	82	15	25	37	21	1.93
245457--245519	24	2.9	22	88	9	85	15	26	36	20	1.93
253062--253096	12	2.8	12	91	4	52	37	8	5	48	1.58
254847--254880	12	2.7	13	86	9	52	44	8	5	41	1.60
256884--256935	26	2.0	26	100	0	104	38	11	7	42	1.70
261814--262074	136	1.9	133	89	6	402	30	9	19	40	1.84
266678--266739	31	2.0	32	96	3	117	12	29	6	51	1.65
270856--270923	18	3.7	18	76	7	82	30	27	22	19	1.97
270854--270948	38	2.5	37	77	6	109	28	25	21	25	1.99
273044--273079	3	11.3	3	88	11	54	61	0	38	0	0.96
273042--273079	13	2.9	13	100	0	76	60	0	39	0	0.97
273044--273079	10	3.8	9	86	13	54	61	0	38	0	0.96
279124--279155	2	16.5	2	93	6	57	46	0	0	53	1.00
290438--290462	2	12.5	2	100	0	50	48	0	0	52	1.00
290772--290969	9	21.9	9	74	17	130	37	0	5	57	1.22
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
290771--290968	30	6.5	29	71	21	106	37	0	5	57	1.22
290772--290928	2	84.5	2	70	22	103	39	0	4	56	1.20
290789--290965	92	1.9	91	82	10	218	36	0	6	57	1.24
290770--290969	25	7.4	27	74	16	114	37	0	5	57	1.22
290902--290980	19	4.0	19	77	11	63	30	0	5	64	1.15
292762--292820	31	1.9	31	85	0	82	23	10	15	50	1.74
292762--292827	31	2.1	31	82	0	78	25	12	13	48	1.77
296895--296919	13	1.9	13	100	0	50	20	8	16	56	1.65
301043--301078	2	18.0	2	100	0	72	50	0	0	50	1.00
301757--301845	46	2.0	46	88	2	135	28	25	17	28	1.98
306089--306128	20	2.0	20	95	0	71	40	27	0	32	1.57
306091--306171	10	7.5	11	72	24	59	39	23	1	35	1.63
308033--308067	15	2.4	14	90	9	52	31	37	0	31	1.58
311856--311881	3	8.7	3	100	0	52	0	34	0	65	0.93
311826--311927	53	1.9	53	87	0	150	15	30	9	44	1.79
314668--314703	13	2.6	14	91	8	56	25	0	30	44	1.54
315428--315515	44	2.0	43	86	2	122	43	9	11	36	1.72
315633--315724	44	2.1	44	83	0	112	46	7	11	33	1.69
315285--315745	201	2.3	201	80	4	512	40	12	10	36	1.77
319993--320140	29	5.2	29	73	11	108	48	15	2	33	1.59
326508--326565	24	2.4	24	82	0	71	39	24	12	24	1.89
327254--327404	29	5.2	28	71	12	90	48	13	1	35	1.55
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
327380--327435	29	2.0	29	85	3	78	44	25	3	26	1.70
328186--328405	117	1.9	116	80	2	262	25	20	14	38	1.91
332451--332488	12	3.1	12	88	7	58	44	7	23	23	1.79
333781--333842	24	2.6	24	84	0	79	41	16	12	29	1.85
334553--334627	30	2.5	30	84	4	98	46	21	5	26	1.72
341016--341094	24	3.3	24	78	0	77	39	17	16	26	1.91
341806--341900	29	3.3	29	83	2	120	46	23	4	26	1.70
341971--342010	19	2.1	19	86	9	55	30	32	22	15	1.94
348956--349033	30	2.6	30	89	2	113	51	21	3	23	1.64
351511--351574	4	16.5	4	91	6	96	50	21	0	28	1.49
351511--351588	8	10.0	8	86	5	70	50	19	0	30	1.48
352889--353353	229	2.0	233	90	4	737	30	11	21	35	1.89
353592--353639	25	1.9	25	83	8	62	29	10	4	56	1.52
353513--354053	163	3.3	160	82	7	625	40	12	9	37	1.76
353999--354165	44	3.8	44	85	4	239	46	8	11	34	1.70
353992--354172	88	2.1	88	94	0	317	45	9	10	34	1.71
354176--354223	25	1.9	25	83	8	62	27	18	4	50	1.65
363830--363866	4	9.5	4	88	5	58	24	0	0	75	0.80
367419--367472	23	2.3	23	84	6	74	77	0	18	3	0.91
368632--369591	66	14.6	66	96	0	1753	29	21	17	32	1.96
373719--373803	44	1.9	44	90	0	134	42	8	15	34	1.77
373726--373824	44	2.2	44	81	0	117	43	9	14	33	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
374022--374127	44	2.4	44	90	0	158	40	10	13	35	1.78
373665--374236	303	1.9	303	88	2	864	37	14	11	37	1.81
374946--375004	25	2.4	25	94	2	102	28	5	5	61	1.39
375043--375132	44	2.0	44	86	0	126	42	12	13	32	1.81
379436--380234	384	2.1	383	97	0	1526	36	15	10	37	1.81
381094--381144	26	2.0	26	84	7	68	31	5	15	47	1.70
381597--381706	2	55.0	2	100	0	220	50	0	0	50	1.00
381875--381916	11	3.8	11	87	12	68	26	2	0	71	0.98
392796--392854	21	2.9	20	77	5	64	25	37	22	15	1.93
408520--408596	26	3.0	26	88	0	100	24	24	38	11	1.89
410388--410443	21	2.5	22	83	11	62	35	8	7	48	1.62
412622--412682	31	2.0	31	93	0	104	37	19	11	31	1.87
412983--413046	26	2.5	25	78	12	67	23	6	0	70	1.10
417229--417344	32	3.6	30	78	9	97	29	13	20	36	1.91
418507--418611	36	2.9	37	95	2	194	28	22	13	35	1.92
418650--418711	32	2.0	32	90	9	101	29	11	12	46	1.77
418742--418803	30	2.1	30	84	6	81	41	17	8	32	1.79
418810--419054	83	2.9	83	88	0	337	31	26	18	22	1.97
419411--419465	10	5.7	10	80	18	55	32	0	0	67	0.91
419411--419465	20	2.8	20	76	23	64	32	0	0	67	0.91
419415--419474	23	2.7	23	85	14	74	28	0	0	71	0.86
419415--419474	27	2.4	25	86	10	79	28	0	0	71	0.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
419529--419594	33	2.0	33	96	0	123	40	21	10	27	1.86
419529--419610	33	2.5	33	90	4	112	37	20	13	28	1.90
421648--421687	2	20.0	2	100	0	80	50	0	0	50	1.00
427000--427039	10	4.1	10	80	6	55	85	10	5	0	0.75
427006--427046	18	2.2	19	91	4	66	80	12	7	0	0.90
434055--434643	247	2.4	247	87	8	842	28	11	18	41	1.85
435007--435053	18	2.7	18	86	3	69	27	27	8	36	1.86
449319--449385	35	1.9	35	84	6	91	34	22	17	25	1.96
454891--454943	21	2.5	21	84	0	70	20	26	18	33	1.96
454933--455039	20	5.3	20	84	4	144	37	20	20	21	1.95
454933--455041	41	2.7	40	85	4	148	36	21	21	21	1.95
454933--455060	40	3.2	39	76	15	120	35	21	20	22	1.96
458370--458463	20	4.7	20	86	2	127	35	23	21	20	1.96
458500--458595	33	2.9	34	82	3	122	13	22	19	43	1.86
458697--458733	14	2.6	14	86	0	56	48	21	0	29	1.50
460086--460196	42	2.7	43	77	8	122	26	18	34	20	1.96
460676--460789	34	3.4	34	80	2	149	44	21	20	13	1.85
460817--460960	20	7.5	20	81	12	113	21	18	20	39	1.92
460779--460960	40	4.9	40	74	13	156	20	19	20	40	1.92
462845--462884	20	2.0	20	95	0	71	57	20	12	10	1.63
462851--462914	20	3.2	20	88	0	83	43	25	15	15	1.86
462958--463006	20	2.5	20	89	0	71	22	20	22	34	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
463624--463669	21	2.2	21	88	0	65	36	17	28	17	1.92
465655--465682	2	14.0	2	100	0	56	50	0	0	50	1.00
471802--471838	12	3.1	12	96	0	65	37	0	0	62	0.96
475306--475353	12	4.1	12	81	2	53	20	0	2	77	0.88
475431--475466	17	2.2	16	90	5	54	8	2	5	83	0.89
475433--475489	23	2.5	23	76	0	60	7	8	7	77	1.13
475587--475648	30	2.1	30	87	6	90	27	17	0	54	1.43
476685--476736	22	2.4	21	84	9	61	57	0	3	38	1.17
476785--476821	2	18.5	2	100	0	74	48	0	0	51	1.00
477884--477961	41	2.0	38	87	7	111	43	0	10	46	1.37

Tables:   1   2   3   4   5   6   7   8   9   10   11   12