genome.fa.s1981.2.7.7.80.10.50.1000.2.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: VEPZ01001981.1 Hibiscus syriacus cultivar Beakdansim tig00004035_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1059896

Tables:   1   2   3   4   5   

This is table  2  of  5  ( 528 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)
277082--277579	225	2.2	226	93	1	856	38	14	16	31	1.88
277579--278250	202	3.3	201	86	3	852	32	14	12	40	1.83
284420--284497	19	4.1	19	70	9	59	37	16	1	44	1.56
285081--285472	173	2.3	174	89	0	579	32	13	13	41	1.83
286617--286887	143	1.9	147	89	5	435	34	9	15	39	1.81
289454--289813	53	6.9	53	85	7	411	22	28	19	29	1.98
289454--289813	158	2.3	155	83	8	414	22	28	19	29	1.98
290338--290387	20	2.5	20	96	0	91	30	24	26	20	1.98
290216--290514	142	2.1	142	89	1	465	31	22	18	28	1.97
290620--290726	42	2.6	41	77	2	115	28	21	21	28	1.99
295531--295570	18	2.2	18	100	0	80	17	22	20	40	1.92
300929--301038	53	2.1	53	84	3	141	29	4	16	50	1.65
310708--310793	43	2.0	43	97	0	163	26	6	20	45	1.77
312196--312301	45	2.4	45	83	3	124	29	8	20	41	1.82
312223--312322	45	2.2	45	89	0	146	21	9	29	41	1.83
315321--315364	14	2.9	15	80	10	54	2	13	2	81	0.88
318265--318298	6	5.7	6	92	0	50	82	5	0	11	0.83
323202--323279	27	2.9	27	84	0	84	48	3	8	38	1.53
323231--323289	27	2.2	27	84	0	73	47	3	10	38	1.54
323312--323418	27	4.0	27	80	0	97	46	3	14	35	1.62
334030--334092	23	2.9	22	79	11	67	14	20	15	49	1.80
335619--335870	71	3.6	71	78	1	184	19	18	24	36	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
339825--339864	20	2.0	20	95	0	71	32	25	7	35	1.84
342849--342920	29	2.5	29	97	0	135	37	11	11	40	1.76
342942--343000	30	2.0	30	93	0	100	38	5	23	32	1.77
343246--343313	24	2.8	24	70	18	68	23	23	25	27	2.00
343836--343862	12	2.2	12	100	0	54	25	14	25	33	1.95
353004--353679	54	12.5	54	86	2	815	35	18	16	28	1.93
354621--354648	13	2.2	13	100	0	56	32	10	7	50	1.64
358013--358070	29	2.0	30	82	3	73	31	15	6	46	1.72
359837--359920	20	4.2	20	77	8	80	32	25	19	23	1.97
359869--359921	20	2.7	20	93	0	88	24	28	20	26	1.99
360476--360517	19	2.2	19	86	0	57	50	28	16	4	1.66
360513--360677	19	9.1	19	72	15	125	13	23	18	44	1.86
360565--360652	33	2.6	33	87	1	122	14	26	19	39	1.90
360631--360677	20	2.3	20	79	13	60	14	25	12	46	1.80
362364--362539	91	1.9	90	88	7	266	22	13	17	47	1.82
362793--362970	42	4.2	42	79	2	189	21	35	19	22	1.96
362904--362970	21	3.2	21	66	6	55	23	35	20	19	1.95
362764--362940	84	2.1	84	96	0	327	21	37	17	23	1.94
362798--362970	84	2.1	84	89	0	265	22	36	19	21	1.95
364328--364363	14	2.6	14	95	0	63	30	0	25	44	1.54
364485--364549	14	4.3	14	73	17	58	46	20	23	10	1.81
364470--364559	33	2.7	33	91	0	135	43	20	21	15	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
364470--364530	19	3.5	19	74	21	69	44	21	22	11	1.84
364555--364685	19	7.7	19	66	23	94	14	22	19	42	1.88
364559--364685	33	3.9	32	87	8	193	14	22	19	42	1.88
364552--364684	66	2.0	66	97	0	248	16	22	19	41	1.90
366976--367000	12	2.1	12	100	0	50	0	28	0	72	0.86
367175--367228	24	2.2	24	90	0	81	40	20	16	22	1.91
368196--368305	20	5.6	20	95	1	195	34	25	23	16	1.95
368336--368389	14	3.5	14	75	22	54	11	22	20	46	1.82
368318--368388	33	2.2	33	81	0	79	19	21	21	38	1.94
368382--368420	20	2.0	20	94	0	69	12	10	30	46	1.75
370392--370445	20	2.7	20	88	0	81	37	24	24	14	1.93
370492--370546	20	2.8	19	83	8	65	16	23	23	36	1.94
371028--371072	18	2.5	18	88	0	72	13	15	44	26	1.83
372393--372451	20	3.0	20	87	0	73	42	22	18	16	1.89
372713--372756	22	2.0	22	95	0	79	18	15	45	20	1.85
372924--373058	20	6.7	20	78	7	121	25	17	22	33	1.96
372924--373061	61	2.3	61	87	0	195	25	17	22	34	1.95
372924--373079	61	2.6	61	82	2	152	24	18	22	34	1.96
373129--373169	21	2.0	21	85	0	55	34	31	17	17	1.93
373533--373567	18	1.9	18	88	0	52	45	2	11	40	1.55
378587--378616	10	3.0	10	100	0	60	20	10	10	60	1.57
378704--378737	17	2.0	17	88	0	50	14	2	2	79	0.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
382425--382891	240	1.9	239	92	0	790	34	22	17	25	1.96
383084--383158	36	2.1	36	97	0	141	24	20	14	41	1.89
383201--383365	36	4.4	37	78	13	158	25	19	13	41	1.88
383373--383498	36	3.5	36	82	3	155	24	20	13	41	1.88
383472--383521	25	2.0	25	100	0	100	36	20	16	28	1.93
383526--383621	37	2.6	37	85	8	126	28	13	13	44	1.81
383607--383729	35	3.5	35	84	7	160	44	18	6	30	1.75
385224--385280	30	1.9	30	100	0	114	19	15	24	40	1.90
390966--390990	7	3.6	7	100	0	50	0	12	0	88	0.53
390985--391042	25	2.3	26	90	3	91	15	6	6	70	1.30
393213--393269	25	2.3	25	82	8	71	19	1	3	75	1.04
393226--393269	14	3.1	14	86	3	61	18	0	2	79	0.83
393257--393311	22	2.5	23	82	11	62	21	5	1	70	1.16
396774--396805	3	10.7	3	100	0	64	34	0	0	65	0.93
397918--397966	22	2.3	20	78	18	55	18	14	0	67	1.23
399199--399251	16	3.3	16	72	0	52	24	24	13	37	1.91
401716--402389	182	3.7	182	87	1	913	41	14	16	27	1.87
401716--402389	363	1.9	363	87	1	999	41	14	16	27	1.87
404683--404715	15	2.2	15	94	0	57	18	3	63	15	1.43
404798--404841	21	2.1	21	83	8	54	43	11	29	15	1.82
404874--405006	33	4.0	33	98	0	239	29	0	45	24	1.53
404987--405027	21	2.0	21	90	0	64	26	2	43	26	1.67
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
405190--405246	18	3.2	18	94	0	96	57	0	40	1	1.09
407055--408632	200	7.8	199	82	6	1599	35	14	17	32	1.89
407054--408632	421	3.9	397	82	7	1681	35	14	17	32	1.89
407853--407904	21	2.5	21	100	0	104	36	13	17	32	1.89
407653--408104	221	2.0	221	91	0	735	35	14	18	32	1.91
411122--411173	11	4.5	11	77	13	59	36	7	7	48	1.61
411469--412235	199	3.8	198	83	4	918	37	13	16	32	1.87
411469--412235	401	1.9	398	82	4	972	37	13	16	32	1.87
415445--416344	200	4.5	199	83	5	1081	38	14	15	31	1.88
415445--416345	399	2.3	399	84	5	1148	38	14	15	31	1.88
416437--416495	23	2.6	23	91	0	91	32	16	8	42	1.79
416362--416610	87	2.9	87	95	0	437	31	14	12	41	1.82
416532--416576	23	2.0	23	86	0	63	37	20	6	35	1.79
417101--417166	2	33.0	2	93	0	114	50	3	0	46	1.16
417271--417316	24	1.9	24	91	8	76	52	0	10	36	1.37
417270--417322	24	2.2	24	83	6	72	54	0	11	33	1.36
417618--417648	2	16.0	2	93	6	55	51	0	0	48	1.00
417890--418220	2	164.0	2	62	25	58	45	4	4	45	1.44
417865--417930	31	2.1	31	88	5	96	48	1	7	42	1.40
417893--417967	19	3.8	20	86	11	93	54	1	5	38	1.31
417898--417967	21	3.4	21	86	9	99	54	1	5	38	1.33
417802--417967	25	6.9	24	69	17	78	53	2	7	36	1.42
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
418014--418101	21	4.2	21	83	11	101	53	1	9	36	1.40
418110--418552	22	19.5	23	67	21	113	38	6	2	52	1.42
418247--418349	53	1.9	54	80	9	122	38	8	3	48	1.53
418322--418384	8	7.9	8	80	8	67	33	7	1	57	1.37
418420--418583	57	2.8	57	77	15	160	42	3	2	51	1.30
418565--418606	17	2.5	17	80	3	50	57	2	0	40	1.12
418503--418691	22	9.3	20	70	17	88	47	4	3	44	1.38
418766--418852	35	2.4	35	84	7	104	50	2	4	42	1.35
418755--418852	2	49.5	2	71	13	69	48	2	4	44	1.33
418856--419180	22	15.1	22	69	20	179	35	7	3	53	1.45

Tables:   1   2   3   4   5