genome.fa.s908.2.7.7.80.10.50.1000.2.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: VEPZ01000908.1 Hibiscus syriacus cultivar Beakdansim tig00001802_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  480356

Tables:   1   2   3   

This is table  2  of  3  ( 249 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)
203947--204000	14	3.5	14	73	22	54	44	20	24	11	1.83
203927--204022	33	2.8	33	93	3	156	43	19	22	13	1.86
203960--204027	20	3.8	19	72	21	74	47	19	22	11	1.81
204044--204132	33	2.6	34	87	3	126	13	21	19	46	1.84
204104--204192	20	4.4	20	90	2	135	17	22	24	34	1.96
206619--206672	24	2.2	24	90	0	81	40	18	18	22	1.91
206635--206686	24	2.2	24	82	0	59	36	21	19	23	1.95
207513--207596	20	4.2	20	95	0	141	22	20	27	29	1.98
207586--207698	20	5.7	20	89	0	163	23	18	18	39	1.92
207573--207698	40	3.1	41	84	6	134	23	18	19	38	1.93
207695--207740	21	2.2	21	92	0	74	41	19	23	15	1.89
208635--208665	2	15.5	2	100	0	62	48	0	0	51	1.00
223560--224209	182	3.6	181	89	1	944	41	13	18	26	1.87
225350--225542	106	1.8	107	84	5	266	41	11	16	30	1.84
225450--225927	198	2.4	199	80	5	549	38	13	15	32	1.86
225922--225980	23	2.6	23	100	0	118	35	18	10	35	1.85
225942--226106	87	1.9	87	91	0	267	32	14	10	42	1.79
226019--226070	23	2.3	23	79	0	59	34	23	5	36	1.79
230217--231584	684	2.0	684	81	2	1620	22	24	21	31	1.99
230217--231584	228	6.0	227	82	3	1259	22	24	21	31	1.99
235430--235501	21	3.2	22	80	9	65	68	8	0	23	1.17
235450--235507	21	2.8	21	84	2	73	72	5	0	22	1.04
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
242561--242617	29	2.0	29	100	0	114	24	14	14	47	1.80
247176--247234	29	2.0	29	100	0	118	23	13	13	49	1.78
248687--248779	46	2.0	46	95	0	168	19	25	8	46	1.78
251206--251275	33	2.1	33	81	5	79	24	27	14	34	1.94
251606--251680	20	4.0	19	77	13	75	32	17	22	28	1.96
251610--251681	36	2.0	36	86	5	101	33	16	20	29	1.95
252040--252094	21	2.6	21	97	0	101	27	18	25	29	1.98
252144--252215	20	3.9	18	78	17	69	27	15	26	30	1.96
252165--252195	16	1.9	16	93	0	53	29	16	22	32	1.95
252145--252216	36	2.0	36	86	5	101	29	15	25	30	1.96
255654--255680	10	2.7	10	100	0	54	18	11	11	59	1.60
255665--255691	14	1.9	14	100	0	54	18	14	7	59	1.58
255944--255974	10	3.1	10	95	0	53	12	9	16	61	1.56
257241--257330	44	2.0	45	97	2	173	17	8	18	54	1.69
266997--267028	2	16.5	2	93	6	57	50	0	0	50	1.00
268803--268859	17	3.5	17	72	13	66	38	3	1	56	1.27
268797--268857	31	2.0	31	86	0	86	39	3	1	55	1.26
269470--269524	2	27.5	2	100	0	110	49	0	0	50	1.00
272957--272996	18	2.3	19	87	12	59	42	0	0	57	0.98
272966--273008	22	2.0	22	85	0	59	39	0	2	58	1.11
273128--273164	7	5.0	7	87	12	56	54	2	2	40	1.29
273110--273164	23	2.3	23	93	3	92	50	3	3	41	1.37
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
279549--279677	55	2.3	55	92	2	206	44	12	22	20	1.85
283653--283912	123	2.1	124	89	2	396	30	16	27	25	1.97
285048--285158	37	3.1	36	81	5	125	36	18	18	26	1.95
285492--285970	56	8.7	56	84	4	528	35	16	23	24	1.95
285985--286711	55	13.3	55	86	2	901	32	14	23	29	1.94
285655--286680	165	6.2	167	79	9	813	33	15	23	27	1.95
285984--286744	384	2.0	382	86	2	1071	32	14	23	28	1.95
290797--290853	21	2.6	23	80	5	73	35	3	0	61	1.13
290831--290922	30	3.0	30	90	4	132	34	11	5	47	1.63
291479--291522	2	22.0	2	100	0	88	50	0	0	50	1.00
294775--294852	31	2.5	31	87	0	111	21	8	15	53	1.69
295430--295475	22	2.2	20	84	7	56	36	19	13	30	1.90
297458--297561	45	2.3	46	91	5	167	31	16	21	30	1.95
301580--301618	17	2.2	18	86	4	53	69	10	2	17	1.28
309826--309868	18	2.4	18	96	0	77	41	18	13	25	1.88
311175--311278	32	3.3	31	83	10	113	28	19	20	31	1.97
311444--311537	35	2.7	35	80	11	97	32	0	18	48	1.48
316055--316130	32	2.4	31	84	4	98	25	18	23	32	1.97
316557--316652	44	2.2	43	83	9	115	27	18	25	29	1.98
316580--316652	23	3.5	20	75	15	58	27	19	24	28	1.98
316554--316633	23	3.6	23	73	10	76	26	21	25	27	1.99
322383--322489	45	2.3	46	92	4	173	31	16	20	30	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
329046--329131	43	2.0	43	81	0	100	50	10	3	36	1.54
331792--331830	17	2.5	16	88	12	55	15	23	7	53	1.67
336987--337055	30	2.3	30	97	0	129	28	7	27	36	1.84
341242--341273	16	1.9	17	93	6	57	43	21	0	34	1.53
345243--345267	3	8.3	3	100	0	50	0	32	0	68	0.90
348654--348688	15	2.3	15	90	0	52	34	34	17	14	1.90
349287--349352	2	33.0	2	100	0	132	50	0	0	50	1.00
350241--350277	12	3.1	12	92	0	65	40	18	0	40	1.51
351124--351173	23	2.2	23	85	0	64	40	10	8	42	1.68
359670--359851	94	1.9	93	88	3	276	20	21	23	34	1.97
359965--360033	22	3.2	22	70	12	61	20	10	36	33	1.86
359950--360067	43	2.7	43	81	0	146	22	17	29	30	1.97
360445--360471	14	1.9	14	100	0	54	22	18	22	37	1.95
371145--371177	13	2.5	13	95	0	57	9	15	48	27	1.74
374267--374323	29	2.0	29	89	0	87	40	26	15	17	1.90
375861--375998	71	1.9	71	88	0	204	34	14	18	33	1.91
386040--386100	30	2.0	30	100	0	122	42	29	0	27	1.56
387606--387635	15	2.0	15	93	0	51	63	6	16	13	1.50
394754--394838	42	2.0	42	100	0	170	47	2	16	34	1.60
396864--396923	31	1.9	31	93	0	102	40	6	10	43	1.64
397449--397533	14	6.6	14	70	24	71	52	1	0	45	1.08
397430--397493	23	2.6	24	85	11	78	53	1	0	45	1.10
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
397429--397587	62	2.6	63	89	8	240	55	1	0	42	1.10
397449--397561	12	9.1	13	68	24	75	53	0	0	45	1.06
398000--398059	24	2.5	24	89	5	86	16	11	15	56	1.67
398902--398978	12	6.7	11	83	15	86	29	25	22	22	1.99
398902--398978	23	3.3	23	91	7	113	29	25	22	22	1.99
399210--399268	16	3.7	16	88	0	73	11	13	18	55	1.68
399333--399363	16	1.9	16	100	0	62	6	12	22	58	1.58
399805--399833	2	14.5	2	100	0	58	0	51	0	48	1.00
400587--400787	93	2.3	88	81	11	232	24	19	19	36	1.95
402795--402845	26	2.0	26	100	0	102	49	3	7	39	1.51
405195--405229	18	1.9	18	88	0	52	20	17	34	28	1.95
413616--413707	2	46.0	2	100	0	184	50	0	0	50	1.00
416380--416464	3	28.7	3	90	2	136	31	2	1	64	1.13
418621--418686	34	2.0	32	85	8	89	42	4	0	53	1.21
418872--418913	20	2.2	19	91	4	66	54	2	2	40	1.26
420227--420301	3	25.0	3	91	0	123	64	1	2	32	1.16
420617--421029	226	1.8	228	94	1	740	29	19	12	38	1.88
420617--421029	114	3.6	114	95	0	731	29	19	12	38	1.88
421714--422592	83	10.6	83	93	2	1437	36	22	13	27	1.92
423366--423411	19	2.7	16	83	10	56	52	8	6	32	1.58
423733--423796	15	4.4	14	82	9	74	3	12	0	84	0.74
423733--423801	33	2.3	31	85	12	90	2	14	0	82	0.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
423735--423801	11	6.2	11	77	17	61	2	14	0	82	0.79
429754--429795	20	2.0	22	86	9	61	38	2	2	57	1.25
429973--430014	15	2.6	16	92	7	68	54	0	2	42	1.13
429969--430042	32	2.3	32	82	11	89	51	0	5	43	1.24
441109--441162	15	3.6	14	85	5	63	77	0	18	3	0.91
441104--441161	26	2.2	26	80	14	66	79	0	17	3	0.87
442198--442916	83	8.7	83	93	1	1149	27	13	22	36	1.92
442198--442916	249	2.9	249	95	0	1269	27	13	22	36	1.92
443599--444810	113	10.7	114	91	2	1787	37	13	19	29	1.90
443601--444811	454	2.7	454	96	1	2176	37	13	19	29	1.90

Tables:   1   2   3