genome.fa.s8186.2.7.7.80.10.50.1000.1.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: VEPZ01008186.1 Hibiscus syriacus cultivar Beakdansim tig00110793_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  806808

Tables:   1   2   3   

This is table  1  of  3  ( 295 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)
10073--10101	14	2.1	14	100	0	58	20	13	6	58	1.58
13802--13864	29	2.1	31	82	11	78	25	6	1	66	1.24
13928--13960	16	2.1	16	94	0	57	66	0	0	33	0.92
21520--21559	20	2.0	20	90	4	64	32	2	0	65	1.06
29873--30019	71	2.0	73	87	6	210	42	9	4	43	1.58
31826--31882	9	5.9	9	75	15	51	8	22	24	43	1.81
31826--31891	20	3.3	20	93	0	114	9	24	25	40	1.84
32086--32143	30	1.9	30	85	0	80	10	31	27	31	1.90
35671--35722	27	1.9	27	88	0	77	25	42	7	25	1.81
40268--40319	27	1.9	27	88	0	77	25	42	7	25	1.81
57837--57876	20	2.0	20	95	0	71	45	12	5	37	1.64
57833--57982	53	2.9	52	94	3	266	48	12	6	32	1.67
57943--57981	20	2.0	20	94	0	69	41	17	5	35	1.72
59491--59521	16	1.9	16	100	0	62	29	38	6	25	1.81
62529--62568	20	2.0	20	90	9	64	45	10	5	40	1.60
62522--62674	53	2.9	52	93	2	263	47	11	6	33	1.66
62635--62673	20	2.0	20	94	0	69	41	17	5	35	1.72
71532--71556	10	2.5	10	100	0	50	16	12	0	72	1.13
71598--71663	30	2.2	29	86	2	87	45	3	7	43	1.47
76923--76956	16	2.1	16	94	0	59	32	26	8	32	1.87
80907--80948	9	4.8	9	80	13	52	73	2	0	23	0.94
87967--88011	2	23.0	2	95	4	83	51	0	0	48	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
88186--88219	17	1.9	17	88	5	50	26	0	17	55	1.42
95198--95239	16	2.6	16	88	0	66	59	21	9	9	1.57
109428--109584	82	1.9	84	89	5	246	43	10	12	34	1.76
113520--113576	27	2.1	27	100	0	114	56	10	3	29	1.50
122321--122598	140	2.0	140	96	0	511	41	14	15	28	1.87
132657--132838	87	2.1	87	88	2	267	31	12	15	41	1.84
140544--140586	19	2.2	20	95	4	79	37	4	25	32	1.77
140830--140922	20	4.6	20	75	7	71	26	21	22	29	1.99
140911--141042	40	3.3	39	69	12	115	28	18	24	28	1.98
152535--152563	2	14.5	2	100	0	58	51	0	0	48	1.00
162546--162571	12	2.2	12	100	0	52	50	30	11	7	1.67
164337--164402	33	2.0	34	90	3	107	30	9	21	39	1.84
177794--177844	20	2.5	20	77	0	57	50	21	3	23	1.65
178753--178840	22	4.1	21	77	11	81	29	12	28	29	1.93
178753--178795	21	2.0	22	90	4	70	25	13	27	32	1.94
178800--178855	22	2.6	22	83	5	62	28	12	28	30	1.93
178972--179003	2	16.5	2	93	6	57	46	0	0	53	1.00
197441--197575	59	2.3	59	81	3	155	40	15	13	31	1.86
209602--209626	3	8.3	3	100	0	50	32	32	0	36	1.58
209884--209939	21	2.7	21	80	0	67	19	25	32	23	1.98
211523--211574	27	1.9	27	84	7	70	65	7	0	26	1.20
219214--219339	6	22.3	6	98	1	196	35	46	17	0	1.48
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
219821--219853	6	5.7	6	89	3	50	0	18	48	33	1.48
219936--219997	21	3.1	19	73	13	52	35	20	19	24	1.96
219987--220191	21	9.8	21	80	12	147	26	21	22	28	1.99
219978--220087	42	2.6	42	97	0	202	27	22	23	26	2.00
220096--220257	83	1.9	83	87	3	236	25	20	22	32	1.98
220069--220273	104	2.0	104	93	0	347	25	20	21	32	1.98
220095--220273	21	8.6	21	83	6	220	25	20	22	31	1.98
230146--230174	2	14.5	2	100	0	58	48	0	0	51	1.00
234206--234286	30	2.6	31	72	3	83	37	13	4	44	1.66
239160--239200	18	2.3	18	91	0	64	9	7	34	48	1.64
240770--240807	18	2.1	18	95	0	67	44	10	18	26	1.82
244391--244425	18	2.0	18	94	5	63	60	5	5	28	1.43
246717--246777	29	2.1	29	100	0	122	42	19	9	27	1.83
257961--258003	21	2.0	21	90	0	68	4	41	18	34	1.71
262368--262450	23	3.7	23	73	3	87	16	22	26	33	1.96
263091--263120	14	2.1	14	100	0	60	36	6	6	50	1.55
265720--265773	17	3.3	17	76	10	58	51	7	0	40	1.30
275450--275488	21	2.0	21	85	10	55	46	2	12	38	1.56
280996--281023	2	14.0	2	100	0	56	50	0	0	50	1.00
283176--283245	31	2.3	31	82	5	88	37	15	7	40	1.75
283563--283607	21	2.1	21	87	0	63	17	26	17	37	1.93
283609--283672	20	3.2	20	75	4	74	39	18	20	21	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
283609--283698	41	2.2	40	86	2	117	36	20	20	23	1.95
284269--284315	20	2.3	20	81	0	58	34	27	21	17	1.95
284344--284412	20	3.5	20	93	0	102	20	17	26	36	1.94
284345--284432	40	2.2	40	85	0	113	18	15	25	40	1.90
284380--284434	20	2.8	20	94	0	92	10	14	23	50	1.74
284399--284442	20	2.2	20	87	0	61	13	13	20	52	1.74
288319--288354	14	2.6	14	90	0	54	30	0	22	47	1.52
288456--288551	33	2.9	34	85	3	131	41	20	25	12	1.87
288568--288611	19	2.2	20	96	4	81	13	20	18	47	1.82
288619--288712	20	4.7	20	84	2	127	19	20	24	36	1.95
291128--291181	24	2.2	24	90	0	81	42	18	18	20	1.89
292042--292128	20	4.3	20	79	5	104	21	20	20	36	1.95
292042--292128	41	2.2	40	89	2	129	21	20	20	36	1.95
297019--297045	6	4.5	6	100	0	54	14	0	55	29	1.40
297844--297877	16	2.1	16	100	0	68	23	0	35	41	1.55
307989--308022	15	2.4	14	85	9	50	38	0	23	38	1.55
312563--312598	17	2.1	17	94	0	63	27	11	44	16	1.82
312671--312712	12	3.4	12	87	9	50	28	0	0	71	0.86
312712--312791	3	27.0	3	82	2	99	58	0	0	41	0.98
316262--316340	36	2.2	36	97	0	149	50	15	10	24	1.74
317548--317601	22	2.4	21	84	12	63	51	3	5	38	1.43
317561--317605	12	3.9	12	75	19	51	48	2	6	42	1.41
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
323225--323335	36	3.2	34	81	13	111	36	0	1	61	1.13
323229--323280	15	3.2	15	75	17	50	34	1	1	61	1.18
325798--325847	15	3.3	15	78	15	59	4	4	14	78	1.05
335478--335530	26	2.1	26	85	3	72	39	9	0	50	1.35
337362--337433	33	2.2	33	97	0	135	18	48	15	18	1.81
337372--337427	18	3.3	18	65	14	55	19	46	14	19	1.84
344376--344773	209	1.9	212	83	4	518	33	17	14	33	1.91
348333--348662	183	1.8	183	91	1	545	30	20	23	26	1.99
351552--351624	33	2.3	32	86	9	96	41	0	0	58	0.98
351552--351649	30	3.3	30	80	8	96	39	0	0	60	0.97
351601--351648	25	2.0	24	88	12	71	37	0	0	62	0.95
351608--351657	24	2.1	24	81	7	57	36	0	2	62	1.07
351730--351774	23	2.0	24	83	12	60	33	0	8	57	1.30
351784--351831	17	2.8	18	78	12	57	41	0	2	56	1.11
353444--353504	21	2.9	21	90	4	88	18	36	19	26	1.94
353921--354061	57	2.5	58	79	13	159	32	20	9	36	1.86
354078--354198	63	1.9	63	93	0	206	35	19	0	44	1.56
354332--354924	127	4.8	128	86	6	760	34	22	22	21	1.97
354702--354924	116	1.9	115	86	6	317	33	21	22	21	1.98
355664--355711	23	2.1	23	96	0	87	27	25	25	22	2.00
357344--357385	21	2.0	21	85	0	57	16	26	28	28	1.97
359522--359572	23	2.2	23	96	0	93	37	35	1	25	1.67
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
360750--360810	23	2.7	23	86	0	86	24	24	27	22	2.00
362485--362528	21	2.1	21	86	0	61	15	27	27	29	1.96
372291--372345	24	2.3	24	82	17	71	67	0	12	20	1.23
375185--375232	9	5.3	9	85	9	71	56	4	0	39	1.19
375170--375232	27	2.3	27	97	0	117	53	6	0	39	1.26
377535--377749	105	2.0	105	95	0	385	33	13	22	30	1.93
399858--399946	45	2.0	45	100	0	178	35	21	13	29	1.91
403362--403395	17	2.0	17	88	0	50	44	8	11	35	1.72
407761--407804	20	2.3	19	80	15	54	22	11	2	63	1.38
407910--407943	2	17.0	2	100	0	68	50	0	0	50	1.00

Tables:   1   2   3