genome.fa.s9614.2.7.7.80.10.50.1000.2.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: VEPZ01009614.1 Hibiscus syriacus cultivar Beakdansim tig00117000_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2129691

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

This is table  2  of  10  ( 1149 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)
181476--181799	106	3.0	106	90	0	486	33	25	19	21	1.97
181946--182132	102	1.8	102	83	4	252	27	19	12	40	1.88
183555--183641	2	43.5	2	97	0	165	48	0	0	51	1.00
183641--183665	2	12.5	2	100	0	50	0	0	48	52	1.00
183698--183800	37	2.9	34	81	8	107	28	2	1	66	1.16
183808--183905	38	2.5	38	76	17	94	23	5	2	69	1.19
191575--191633	10	5.7	10	80	4	55	67	1	5	25	1.20
191583--191638	11	5.3	11	80	20	57	64	1	5	28	1.26
191575--191638	21	3.0	21	80	8	76	65	1	4	28	1.21
192912--192959	22	2.2	22	85	3	62	20	2	2	75	1.02
192899--192957	10	5.7	10	75	11	57	22	1	3	72	1.08
199502--199919	207	2.0	209	98	1	813	32	16	26	24	1.96
202513--203087	288	2.0	287	98	0	1114	41	17	16	24	1.89
203896--204342	227	2.0	227	94	1	781	44	7	7	39	1.61
204408--204453	20	2.3	19	89	10	74	54	10	17	17	1.70
204575--204621	20	2.4	19	89	10	76	55	10	17	17	1.69
204579--204626	20	2.6	18	84	15	62	56	10	14	18	1.66
206851--206915	21	3.1	21	80	6	69	40	15	29	15	1.88
206980--207016	18	2.1	18	89	0	56	32	5	10	51	1.60
206972--207018	24	2.0	24	86	0	67	34	4	14	46	1.64
207275--207400	39	3.2	39	97	0	234	48	20	13	17	1.81
207798--207861	23	2.8	23	87	0	92	35	6	20	37	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
207798--207870	23	3.2	23	82	7	85	34	5	20	39	1.76
217938--217986	20	2.5	20	100	0	98	48	10	6	34	1.62
218362--218401	20	2.0	21	90	5	64	40	27	15	17	1.89
221841--221886	20	2.2	21	88	3	67	43	28	15	13	1.83
221795--221988	97	2.0	97	93	2	336	34	24	19	22	1.97
221945--221983	20	1.9	20	89	5	60	38	28	15	17	1.91
231191--231221	12	2.6	12	94	0	53	25	22	0	51	1.48
234225--234284	29	2.0	31	90	6	97	35	6	16	41	1.75
234448--234489	21	2.0	21	95	0	75	23	21	28	26	1.99
248798--248840	22	2.0	22	85	0	59	51	2	9	37	1.47
265520--265559	18	2.2	19	86	8	57	62	5	5	27	1.37
267596--267650	3	18.0	3	78	10	58	58	0	1	40	1.09
272901--272943	13	3.2	13	87	6	59	48	6	0	44	1.29
285256--285323	21	3.0	21	73	16	57	38	7	5	48	1.55
287027--287051	3	8.3	3	100	0	50	32	68	0	0	0.90
289077--289103	9	3.0	9	100	0	54	22	0	77	0	0.76
291135--291417	141	2.0	140	86	2	397	40	12	10	36	1.77
292845--293404	289	1.9	289	95	0	1021	41	11	13	33	1.81
294784--295084	150	2.0	151	99	0	595	39	16	17	25	1.91
296052--296077	13	2.0	13	100	0	52	46	0	0	53	1.00
298441--298471	15	2.1	15	100	0	62	38	0	35	25	1.56
302824--302909	45	1.9	45	80	4	102	20	63	1	13	1.36
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
308905--308951	16	3.1	15	79	8	51	23	2	6	68	1.24
310811--312368	519	3.0	519	98	0	2981	29	17	21	31	1.96
313704--313729	3	8.7	3	100	0	52	0	34	30	34	1.58
315747--315810	16	3.9	16	84	8	76	60	1	0	37	1.06
315742--315814	17	4.4	16	81	5	74	63	1	0	35	1.04
315839--315883	20	2.2	20	88	0	63	35	0	35	28	1.58
316122--316153	13	2.5	13	100	0	64	6	34	53	6	1.51
325368--325540	87	2.0	87	94	0	301	26	21	26	26	2.00
328631--328758	64	2.0	64	100	0	256	34	23	14	28	1.93
332050--332110	25	2.5	24	78	17	70	27	0	0	72	0.85
332161--332246	33	2.6	33	87	3	120	37	18	13	30	1.90
332718--332787	7	10.0	7	79	11	63	24	2	1	71	1.08
332718--332772	23	2.5	22	87	3	74	21	3	0	74	0.97
332730--332774	19	2.4	19	80	0	54	20	4	0	75	0.97
332723--332779	26	2.2	26	84	6	71	21	3	1	73	1.07
334123--334173	14	3.6	15	89	5	63	49	0	0	50	1.00
334136--334173	2	19.5	2	94	5	69	50	0	0	50	1.00
334539--334584	24	1.9	24	86	0	65	65	17	6	10	1.45
335497--335526	10	2.9	10	95	5	51	80	0	0	20	0.72
341240--341298	30	2.0	30	89	0	91	33	15	15	35	1.89
342074--342549	112	4.3	112	89	1	670	26	15	13	44	1.83
343967--344010	14	3.2	14	87	3	54	25	0	20	54	1.45
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
344691--344715	12	2.1	12	100	0	50	52	0	8	40	1.31
348382--348472	39	2.3	39	77	7	96	42	16	20	19	1.89
350604--350663	30	2.0	30	86	0	84	16	28	15	40	1.89
353928--353992	23	2.8	22	81	4	76	26	24	26	23	2.00
354007--354327	103	3.1	103	94	0	588	37	23	13	25	1.92
354810--354847	20	1.9	20	88	0	58	10	31	34	23	1.89
360957--361020	23	2.8	22	83	4	83	28	26	25	20	1.99
361036--361356	103	3.1	103	95	0	588	37	24	12	24	1.91
361839--361876	20	1.9	20	88	0	58	10	28	34	26	1.90
364557--366028	737	2.0	738	98	0	2856	30	16	18	34	1.94
375165--375212	21	2.3	21	100	0	96	25	10	20	43	1.83
378391--378427	17	2.1	18	90	5	58	48	0	0	51	1.00
400915--400983	27	2.5	27	80	2	84	56	0	0	43	0.99
400936--401014	27	3.0	26	80	14	83	51	0	2	45	1.14
400953--401017	27	2.6	26	80	20	84	50	0	3	46	1.17
402124--402153	15	1.9	16	93	6	53	53	0	6	40	1.27
403857--403906	19	2.6	19	96	0	91	28	12	20	40	1.87
412699--412760	25	2.4	26	81	2	72	30	9	8	51	1.63
412849--412897	25	1.9	25	84	12	64	36	12	8	42	1.72
412857--412904	25	1.9	25	83	8	62	37	10	8	43	1.69
413547--413584	19	2.0	19	100	0	76	26	10	36	26	1.89
418474--418521	20	2.4	20	92	0	78	29	41	8	20	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
418626--418666	20	2.0	20	95	0	73	19	12	14	53	1.72
440027--440097	24	3.0	24	79	2	81	22	25	22	29	1.99
446007--446045	15	2.6	15	100	0	78	10	20	0	69	1.17
447107--447146	20	2.0	20	90	0	62	37	35	25	2	1.69
447261--447295	2	18.0	2	94	5	63	51	0	0	48	1.00
447282--447360	34	2.3	33	91	4	122	41	1	0	56	1.07
447262--447336	18	4.2	18	72	10	64	42	1	0	56	1.08
459815--459897	34	2.4	34	89	4	121	40	1	0	57	1.06
463029--463100	28	2.6	28	84	2	92	61	5	5	27	1.41
465213--465237	12	2.1	12	100	0	50	16	8	36	40	1.77
466652--466736	34	2.5	34	98	0	161	40	0	0	60	0.97
468217--468396	60	3.0	59	78	4	193	33	24	6	36	1.80
468531--468752	58	3.7	62	78	10	200	41	5	21	30	1.77
469263--469300	17	2.2	17	100	0	76	31	18	31	18	1.95
470010--470042	15	2.1	16	88	5	50	27	33	6	33	1.81
484261--484285	8	3.1	8	100	0	50	12	0	0	88	0.53
489283--489361	31	2.5	31	87	0	113	34	12	16	36	1.87
492079--492128	25	2.0	25	100	0	100	24	16	32	28	1.96
495837--496277	220	2.0	218	96	3	823	25	30	17	26	1.97
497000--497061	20	3.0	20	86	6	81	38	3	0	58	1.15
501518--501634	62	1.9	60	92	3	198	28	17	14	39	1.89
501814--501843	15	2.0	15	100	0	60	66	0	0	33	0.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
502800--502832	16	2.1	16	88	5	50	48	3	12	36	1.56
502996--503049	25	2.2	25	83	6	65	62	0	7	29	1.22
503840--503869	15	2.0	15	93	0	51	16	26	30	26	1.97
506269--506312	21	2.1	21	86	0	61	25	4	13	56	1.56
507312--507350	20	1.9	21	94	5	71	46	23	15	15	1.83
507299--508148	183	4.7	183	86	1	1048	45	12	14	28	1.81
508150--508648	182	2.7	182	87	3	695	45	11	14	28	1.79
509036--509080	19	2.4	19	92	3	74	42	0	20	37	1.52
509326--509364	18	2.2	18	86	9	53	46	5	7	41	1.55
514775--514830	24	2.5	22	77	13	60	41	1	7	50	1.40

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