genome.fa.s293.2.7.7.80.10.50.1000.1.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: VEPZ01000293.1 Hibiscus syriacus cultivar Beakdansim tig00000538_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  557133

Tables:   1   2   

This is table  1  of  2  ( 213 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)
4487--4534	16	3.0	16	87	0	60	14	8	22	54	1.67
4509--4545	16	2.3	16	95	0	65	16	16	27	40	1.89
10843--10891	18	2.6	19	77	3	55	14	8	20	57	1.63
14538--15049	266	1.9	266	97	0	963	45	6	5	42	1.54
26955--27027	32	2.3	32	86	6	96	34	30	21	13	1.92
27171--27226	12	4.7	12	90	0	67	53	17	10	17	1.72
30164--30237	20	3.7	20	90	0	112	29	31	8	31	1.86
30287--30354	19	3.5	19	77	16	68	38	14	14	32	1.87
31247--31300	24	2.2	24	90	0	81	25	12	16	44	1.84
33560--33595	18	2.0	18	94	0	63	55	25	2	16	1.55
33914--33975	20	3.1	20	90	0	106	19	20	25	33	1.96
33914--34000	40	2.3	38	83	11	101	20	20	22	35	1.96
35457--35503	22	2.1	22	92	0	76	27	14	36	21	1.93
35673--35716	21	2.1	21	95	0	79	38	15	25	20	1.92
41892--41937	23	2.0	23	95	0	83	63	8	6	21	1.46
58905--58938	13	2.5	13	95	4	59	20	26	14	38	1.91
61924--61958	2	17.5	2	100	0	70	51	0	0	48	1.00
63823--63856	16	2.0	18	88	11	54	26	2	5	64	1.30
64326--64573	130	1.9	130	93	0	424	35	12	15	36	1.86
64970--65045	35	2.2	35	92	0	125	35	1	23	39	1.63
75968--76081	43	2.7	43	83	2	122	32	21	18	28	1.96
76186--76351	43	3.8	42	79	6	154	35	20	16	27	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
76861--76913	9	5.9	9	76	14	56	1	22	0	75	0.90
76869--76915	6	8.0	6	80	4	51	2	21	0	76	0.89
82083--82126	2	22.0	2	84	9	54	43	2	4	50	1.35
86251--86592	170	2.0	168	93	5	582	29	16	14	39	1.89
96517--96579	31	2.0	31	90	6	101	38	25	19	17	1.93
107614--107653	16	2.5	16	87	0	53	72	0	25	2	0.97
115264--115350	24	3.7	24	74	11	81	20	12	14	51	1.75
119301--119358	29	2.1	26	84	9	71	48	8	15	27	1.74
129903--129964	27	2.3	27	97	0	115	45	16	9	29	1.79
132109--132173	32	2.0	32	90	0	103	35	16	15	32	1.91
135063--135114	20	2.6	20	81	0	59	23	21	26	28	1.99
139737--140067	164	2.0	167	98	1	641	26	14	25	33	1.94
153423--153458	2	18.0	2	100	0	72	50	0	0	50	1.00
157981--158655	338	2.0	339	96	3	1254	24	19	22	33	1.97
161666--161708	14	3.0	15	83	10	54	16	0	6	76	0.99
161708--161812	55	1.9	54	98	1	201	36	4	23	35	1.76
163846--163895	24	2.1	24	85	7	66	28	2	12	58	1.45
178956--179264	153	2.0	155	95	3	561	40	13	16	29	1.87
179460--179503	15	2.9	15	79	0	52	29	11	34	25	1.91
180488--180529	21	2.0	21	95	0	75	19	35	19	26	1.95
188359--188420	32	1.9	32	87	6	90	33	16	16	33	1.91
188369--188439	32	2.2	32	84	0	97	30	12	21	35	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
189414--189515	48	2.1	47	96	1	186	26	15	17	40	1.90
192776--192802	2	13.5	2	100	0	54	51	0	0	48	1.00
192801--192856	25	2.3	24	81	9	60	53	7	5	33	1.51
196013--196063	22	2.4	22	83	9	61	25	7	1	64	1.31
197221--197587	62	5.9	61	89	2	475	26	20	15	38	1.92
197221--197587	123	3.0	123	87	2	504	26	20	15	38	1.92
197221--197587	185	2.0	186	85	2	506	26	20	15	38	1.92
198250--198282	9	3.8	9	84	8	50	54	0	0	45	0.99
198681--198747	27	2.6	26	77	13	68	29	0	4	65	1.12
201555--201616	24	2.6	24	79	7	63	30	24	11	33	1.90
202608--202651	22	2.0	22	95	0	79	38	36	11	13	1.81
210353--210408	24	2.3	24	96	0	103	28	16	16	39	1.89
211318--211449	59	2.2	60	83	2	160	32	19	4	43	1.71
211880--211913	15	2.3	15	89	0	50	47	5	2	44	1.42
212314--212662	175	2.0	171	94	2	617	20	25	27	26	1.99
230507--230751	108	2.2	108	85	3	319	37	20	18	23	1.94
242008--242040	15	2.2	15	94	0	57	30	15	24	30	1.95
245184--245251	23	3.0	23	84	0	91	19	26	25	29	1.98
250937--250981	20	2.2	20	84	4	54	60	6	4	28	1.42
264011--264056	20	2.3	20	100	0	92	17	4	50	28	1.65
269444--269504	21	3.0	21	83	7	81	27	31	26	14	1.95
269586--269632	13	3.5	13	82	11	51	27	27	6	38	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
272883--272936	28	1.9	28	84	0	72	29	25	20	24	1.99
273075--273218	59	2.5	57	80	10	168	36	8	13	42	1.74
275715--275838	64	1.9	64	91	0	203	45	20	18	15	1.85
293429--293488	27	2.2	28	82	8	70	41	18	0	40	1.50
294752--294863	60	1.9	58	90	3	179	38	16	15	30	1.89
295437--295485	22	2.2	22	82	7	64	48	10	0	40	1.37
298795--298932	60	2.3	60	86	2	179	39	13	11	34	1.81
307233--307258	3	8.7	3	100	0	52	69	0	0	30	0.89
314816--314853	17	2.2	17	90	0	58	65	2	2	28	1.19
316409--316453	18	2.6	18	89	3	65	31	22	6	40	1.80
318276--318551	138	2.0	138	95	0	498	38	15	14	31	1.89
319060--319192	24	5.5	24	81	3	133	50	15	12	21	1.77
319098--319193	12	8.0	12	67	4	59	47	16	13	21	1.81
321342--321392	22	2.5	20	81	9	57	29	27	23	19	1.98
326345--326373	2	14.5	2	100	0	58	48	0	0	51	1.00
326933--326966	2	16.5	2	93	6	59	47	0	2	50	1.16
331548--331581	2	17.0	2	100	0	68	50	0	0	50	1.00
332961--333001	22	1.9	20	85	14	55	34	0	14	51	1.43
341110--341151	22	1.9	22	90	0	66	47	0	14	38	1.44
342141--342165	7	3.6	7	100	0	50	32	0	24	44	1.54
346183--346231	25	2.0	25	83	0	62	40	2	4	53	1.32
351050--351127	9	8.3	9	76	8	57	16	26	28	28	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
351052--351125	19	3.9	18	76	15	60	16	24	29	29	1.96
351123--351161	12	3.4	12	79	13	55	17	46	23	12	1.83
358302--358370	9	7.3	9	79	9	66	15	27	28	27	1.96
358301--358364	29	2.2	28	86	2	83	17	25	29	28	1.97
358301--358370	19	3.7	19	77	11	72	17	27	28	27	1.97
358379--358421	22	2.0	22	100	0	86	20	46	23	9	1.79
358367--358409	17	2.5	17	96	0	77	20	46	23	9	1.79
367127--367165	18	2.2	18	95	4	71	64	2	0	33	1.08
370306--370367	24	2.6	24	89	0	88	27	41	9	20	1.84
372445--372509	3	22.3	3	81	6	80	32	0	3	64	1.09
374135--374201	30	2.2	30	86	0	89	31	28	20	19	1.97
374193--374317	31	4.0	31	79	9	146	30	20	18	31	1.96
374194--374316	63	2.0	62	87	7	178	29	20	18	31	1.96
376674--376803	61	2.1	61	81	0	143	21	15	3	59	1.52
376701--376853	30	5.0	31	81	4	159	17	13	6	62	1.52
376710--376853	61	2.4	61	82	5	184	16	13	6	62	1.52
377839--377974	66	2.1	66	98	0	263	29	11	13	45	1.78
378993--379031	6	6.5	6	96	0	60	33	56	0	10	1.33
384442--384489	26	1.9	25	83	8	62	47	2	6	43	1.40
385266--385290	3	8.3	3	100	0	50	68	0	0	32	0.90
387218--387338	60	2.0	60	95	0	215	20	29	14	35	1.92
387541--387580	20	2.0	20	95	0	71	35	7	30	27	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
400773--400811	17	2.2	17	86	9	51	2	20	12	64	1.40
401125--401200	9	8.4	9	80	9	57	51	0	1	47	1.09
401149--401224	3	25.7	3	83	2	100	60	0	0	39	0.97
401587--402266	113	6.0	113	90	2	1037	31	18	12	37	1.89
401589--402266	229	3.0	226	93	3	1109	30	18	12	37	1.89
401587--402266	342	2.0	336	89	3	1031	31	18	12	37	1.89
402863--403393	83	6.5	82	94	3	905	37	21	13	27	1.91
402863--403393	162	3.2	165	94	4	934	37	21	13	27	1.91
402863--403393	245	2.2	245	95	3	955	37	21	13	27	1.91
404564--404619	8	6.9	8	86	10	78	0	14	0	85	0.59

Tables:   1   2