genome.fa.s2.2.7.7.80.10.50.1000.2.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: VEPZ01000002.1 Hibiscus syriacus cultivar Beakdansim tig00000003_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2131600

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

This is table  2  of  10  ( 1119 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)
202302--202748	109	4.1	109	95	0	777	32	26	19	21	1.97
202734--202766	17	1.9	17	93	0	57	24	15	12	48	1.78
203815--203850	18	1.9	18	88	5	54	22	5	0	72	1.05
210456--210503	3	16.0	3	82	0	60	60	31	6	2	1.33
210505--210550	3	15.3	3	100	0	92	67	0	0	32	0.91
211036--211076	18	2.3	18	87	4	57	29	7	2	60	1.36
214172--214282	51	2.2	50	83	6	134	26	29	27	16	1.97
215802--215848	18	2.7	18	90	3	69	36	8	27	27	1.86
218403--218439	2	18.5	2	100	0	74	51	0	0	48	1.00
227227--227284	22	2.4	25	75	22	68	37	5	37	18	1.74
227234--227284	22	2.3	22	96	0	93	37	5	37	19	1.76
237516--237572	20	2.8	20	81	0	69	15	24	12	47	1.80
238770--238821	22	2.4	22	96	0	95	46	21	17	15	1.84
240984--241570	114	5.2	114	87	2	770	33	8	17	41	1.79
240984--241570	57	10.3	57	81	3	646	33	8	17	41	1.79
240984--241586	227	2.7	227	86	2	827	33	8	16	41	1.78
242435--242620	37	5.1	36	75	7	169	27	14	14	43	1.84
242487--242658	73	2.3	73	81	3	202	24	14	16	44	1.85
245659--245717	24	2.5	24	85	0	82	23	15	16	44	1.86
249600--249686	24	3.6	24	76	6	86	21	16	16	45	1.84
250994--251029	2	18.0	2	100	0	72	50	0	0	50	1.00
253663--253738	25	3.0	25	88	0	107	30	21	21	27	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
254492--254524	8	4.1	8	100	0	66	36	24	0	39	1.56
259162--259202	21	2.0	21	85	0	55	63	0	19	17	1.31
267350--267388	20	2.0	20	84	0	51	23	5	23	48	1.70
282350--282392	20	2.2	20	92	8	72	55	13	11	18	1.68
286672--286717	23	2.0	22	83	8	56	28	21	19	30	1.98
295505--295555	16	3.2	16	94	0	84	27	27	13	31	1.94
297569--297628	31	1.9	31	93	0	102	43	6	6	43	1.57
298234--298295	18	3.2	20	78	19	62	61	0	1	37	1.06
298287--298378	21	4.6	20	70	23	59	56	2	0	41	1.11
298298--298390	34	3.0	34	76	19	105	54	2	0	43	1.12
298370--298418	14	3.8	14	71	20	52	55	0	0	44	0.99
298298--298416	58	2.0	59	95	1	213	54	1	0	43	1.10
298348--298462	12	9.5	12	67	20	53	57	1	0	40	1.09
298977--299027	17	2.8	17	77	19	50	60	5	1	31	1.31
298993--299027	17	2.1	17	88	0	52	65	2	0	31	1.07
300524--300619	23	4.1	24	78	5	97	61	3	0	35	1.12
300541--300630	23	3.9	22	71	17	67	64	3	0	32	1.10
300815--300867	25	2.1	25	96	0	97	45	7	7	39	1.61
302641--302681	21	2.0	21	85	0	55	24	24	26	24	2.00
304112--304150	14	2.8	14	92	0	60	71	0	2	25	0.98
304122--304186	18	3.4	19	77	12	62	72	1	3	23	1.07
310032--310080	21	2.3	21	82	0	62	18	22	18	40	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
314948--314987	17	2.4	17	91	0	62	17	30	25	27	1.97
314956--314990	17	2.1	17	100	0	70	20	22	22	34	1.97
319729--319777	23	2.1	23	100	0	98	24	26	16	32	1.96
323464--323538	35	2.1	35	92	0	123	40	16	14	29	1.88
324145--324191	21	2.2	21	96	0	85	42	27	10	19	1.84
341145--341227	31	2.6	31	76	12	80	30	28	24	16	1.97
356374--356449	31	2.4	31	80	2	89	30	27	25	17	1.97
365426--365455	16	1.9	15	93	6	51	66	0	16	16	1.25
365434--365476	20	2.2	20	83	8	52	55	2	25	16	1.53
367467--367541	32	2.3	34	78	15	79	32	0	17	50	1.46
370341--370378	20	1.9	20	94	0	67	31	34	15	18	1.92
370471--370522	19	2.7	19	100	0	104	30	34	17	17	1.93
370406--370569	83	2.0	83	87	3	240	30	25	16	27	1.97
376367--376448	23	3.6	23	68	17	64	25	24	23	26	2.00
379061--379098	20	1.9	20	94	0	67	31	34	15	18	1.92
379126--379177	19	2.7	19	100	0	104	23	34	17	25	1.96
384009--384048	20	2.0	21	85	14	57	25	10	17	47	1.78
389906--390042	37	3.7	37	95	0	238	40	6	15	37	1.73
392929--393033	37	2.8	37	84	2	140	40	15	14	29	1.86
393430--393475	6	8.2	6	79	13	53	34	0	2	63	1.07
393426--393494	12	5.8	12	75	11	63	31	1	1	65	1.11
393535--393563	2	14.5	2	100	0	58	48	0	0	51	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
393738--393794	21	2.7	21	73	10	53	31	3	0	64	1.10
393744--393787	19	2.4	19	84	3	54	31	4	0	63	1.14
393732--393825	29	3.3	30	76	15	81	28	4	1	65	1.18
393766--393816	13	3.9	14	80	10	54	27	1	0	70	0.98
393737--393832	47	2.0	47	80	11	108	28	4	1	66	1.16
395101--395137	19	1.9	19	89	10	58	8	24	0	67	1.17
398512--398565	14	3.6	14	83	11	63	77	9	12	0	0.98
398524--398570	16	3.1	15	83	16	62	80	6	12	0	0.88
398545--398583	17	2.2	18	86	9	53	82	7	7	2	0.94
399412--399471	24	2.7	21	75	14	57	33	13	5	48	1.64
399637--399672	18	2.0	18	88	0	54	19	8	27	44	1.79
400197--401670	106	13.9	106	91	0	2295	33	24	18	22	1.96
402420--402516	37	2.6	37	88	0	149	40	16	13	29	1.87
402939--402972	15	2.2	16	89	5	52	38	0	0	61	0.96
403023--403054	2	16.5	2	93	6	57	46	0	0	53	1.00
403060--403095	18	1.9	19	94	5	65	22	8	5	63	1.43
403216--403273	18	3.2	17	74	13	53	31	3	1	63	1.21
403262--403307	23	2.1	21	84	8	56	26	4	0	69	1.07
404108--404214	20	5.1	21	68	19	55	59	3	4	31	1.35
404169--404214	18	2.6	18	86	6	58	65	2	2	30	1.16
405182--405249	34	2.0	34	88	2	100	20	19	25	35	1.96
405597--405899	72	4.2	70	75	10	231	42	9	17	30	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
405650--405980	145	2.3	145	81	3	362	39	10	18	32	1.84
409032--409191	61	2.6	61	80	3	180	32	25	13	28	1.94
419995--420036	18	2.3	18	91	0	66	35	19	23	21	1.96
428052--428211	61	2.6	61	87	0	239	27	29	18	25	1.98
434014--434052	20	2.0	20	89	0	60	35	0	15	48	1.45
434285--434314	15	2.0	15	93	0	51	33	0	30	36	1.58
435093--435174	34	2.4	34	85	4	103	23	18	23	35	1.96
438131--438191	31	2.0	31	100	0	122	39	4	13	42	1.65
443228--443419	20	9.6	20	85	2	125	35	23	17	23	1.95
443257--443414	40	4.0	40	93	0	262	34	24	16	24	1.95
443245--443419	60	2.9	60	88	0	260	36	24	16	23	1.94
443959--444004	22	2.1	22	95	0	83	39	13	13	34	1.83
450342--450398	27	2.4	25	81	18	68	50	7	0	42	1.29
452577--452661	34	2.5	34	83	11	111	44	16	9	29	1.79
467289--467320	14	2.4	13	90	10	55	18	6	3	71	1.20
468024--468067	22	2.0	22	86	0	61	34	6	20	38	1.79
468563--468603	17	2.4	17	84	8	57	46	9	14	29	1.77
468685--468760	34	2.2	35	83	6	93	39	11	13	35	1.81
478504--478627	21	5.7	21	78	11	142	24	10	23	41	1.85
478500--478633	44	3.0	44	91	0	223	25	9	23	41	1.85
479218--479326	6	18.2	6	96	0	200	16	18	33	32	1.93
479323--479370	2	24.0	2	86	0	69	6	0	43	50	1.27
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
481509--481546	18	2.2	17	86	9	51	57	0	5	36	1.21
486223--486264	20	2.1	20	86	8	59	23	7	7	61	1.47
486345--486732	194	2.0	194	99	0	767	34	12	15	38	1.85
489663--489716	23	2.3	23	87	6	72	18	31	20	29	1.96
489783--489842	21	2.8	20	71	11	57	25	30	23	21	1.99
491674--491706	11	2.8	12	90	4	50	42	15	3	39	1.62
505020--505100	18	4.6	17	68	29	55	3	17	4	74	1.15
505036--505096	20	3.1	19	76	19	63	1	19	3	75	1.03
505035--505099	28	2.3	29	76	7	80	1	18	3	76	0.99
505366--505405	19	2.0	20	90	4	64	65	0	15	20	1.28

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