genome.fa.s9592.2.7.7.80.10.50.1000.2.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: VEPZ01009592.1 Hibiscus syriacus cultivar Beakdansim tig00116971_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  7920512

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31   32   
          33   34   35   36   37   38   39   

This is table  2  of  39  ( 4673 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)
188611--188663	17	3.2	17	89	7	74	60	0	3	35	1.15
189130--189155	12	2.2	12	100	0	52	61	0	0	38	0.96
189466--189497	10	3.1	11	91	8	50	50	0	0	50	1.00
190683--190727	22	2.0	22	100	0	90	44	13	15	26	1.83
192289--192327	13	2.9	13	88	3	51	58	0	0	41	0.98
192691--192811	36	3.4	36	90	0	197	30	19	19	29	1.97
192951--193086	20	6.8	20	79	5	98	37	15	19	27	1.92
192958--193086	40	3.2	39	89	4	161	37	15	17	29	1.91
192958--193089	60	2.2	60	86	2	176	37	15	18	28	1.92
192974--193089	20	5.8	20	86	0	160	36	15	19	28	1.93
202943--203010	3	23.0	3	85	5	86	32	1	0	66	1.01
202946--203010	22	2.8	22	84	9	85	32	1	0	66	1.01
202947--203005	19	2.9	21	90	10	95	32	1	0	66	1.02
204536--204801	137	1.9	139	85	7	375	40	6	6	46	1.55
207627--207665	7	5.3	7	82	11	51	12	15	10	61	1.56
207627--207665	15	2.6	15	91	0	60	12	15	10	61	1.56
207744--207788	20	2.2	20	84	0	54	17	11	11	60	1.59
210172--210263	1	92.0	1	71	0	58	84	7	4	3	0.84
210179--210253	18	4.4	17	86	6	89	85	9	1	4	0.78
210189--210251	6	10.8	6	93	6	94	85	11	0	3	0.70
210173--210253	22	3.6	22	85	6	99	85	8	2	3	0.81
214526--214675	50	3.0	50	90	0	237	35	14	22	28	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
215047--215101	22	2.5	22	90	0	92	36	10	12	40	1.79
215772--216195	76	5.6	76	95	0	735	23	19	22	35	1.96
216129--216371	94	2.6	91	92	4	407	25	20	18	35	1.95
216129--216371	45	5.3	45	92	4	396	25	20	18	35	1.95
216480--216562	3	27.0	3	82	4	103	31	1	0	67	0.98
217020--217157	65	2.1	65	95	0	249	49	23	24	2	1.64
218139--218389	136	1.9	134	83	8	332	38	7	6	47	1.56
220044--220075	16	2.0	16	100	0	64	62	18	12	6	1.50
220140--220198	10	5.7	10	73	15	57	57	20	11	10	1.63
220144--220192	16	3.1	16	93	0	89	57	22	12	8	1.61
221213--221263	24	2.1	24	85	0	66	54	19	11	13	1.69
221233--221278	14	3.3	14	93	0	83	50	26	15	8	1.73
228683--228722	2	20.0	2	100	0	80	50	0	0	50	1.00
228790--228833	22	2.2	20	84	15	56	27	29	11	31	1.91
231683--231720	15	2.5	15	100	0	76	28	26	15	28	1.96
247595--247632	15	2.5	15	100	0	76	28	26	15	28	1.96
262028--262367	169	2.0	170	99	0	673	31	18	21	28	1.97
264684--264728	20	2.1	21	84	8	56	37	17	20	24	1.93
265058--265254	49	4.0	49	90	2	315	36	16	20	25	1.94
272772--272804	2	16.5	2	100	0	66	48	0	0	51	1.00
273291--273548	46	5.6	46	80	10	312	22	22	12	43	1.86
273362--273538	26	7.5	26	74	16	156	20	22	13	43	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
273415--273548	20	6.1	20	73	19	106	20	23	12	43	1.86
276313--276340	2	14.0	2	100	0	56	50	0	0	50	1.00
276840--277258	46	9.1	46	91	0	676	23	22	12	41	1.87
300804--300835	16	2.0	16	93	0	55	9	12	31	46	1.73
302289--302334	12	3.8	12	75	18	51	32	0	2	65	1.05
302324--302441	14	9.2	14	68	19	80	43	0	1	55	1.10
302329--302392	24	2.5	24	85	10	74	45	0	1	53	1.10
302353--302437	38	2.2	36	81	12	98	42	0	2	55	1.12
302302--302458	64	2.5	64	92	4	257	40	0	2	56	1.13
302453--302514	19	3.3	19	78	15	58	37	1	0	61	1.06
302977--303036	31	1.9	31	89	0	93	45	10	5	40	1.60
305181--305269	31	2.8	32	78	14	103	46	2	7	43	1.45
305181--305269	32	2.8	32	80	14	103	46	2	7	43	1.45
312647--312675	4	7.2	4	100	0	58	75	0	0	24	0.80
317811--317947	23	5.9	23	78	2	121	29	24	24	22	1.99
317874--317947	24	3.1	24	76	3	96	31	21	21	25	1.98
317851--317947	47	2.1	47	96	0	176	29	22	22	24	1.99
317954--318270	103	3.1	103	95	1	570	36	24	13	25	1.92
323717--323841	23	5.3	23	77	6	117	32	24	20	24	1.98
323722--323841	47	2.6	47	91	1	188	31	24	20	23	1.98
323848--324168	103	3.1	103	94	1	554	37	23	13	26	1.91
324994--325026	2	16.5	2	100	0	66	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)
332918--332998	41	2.0	41	95	2	146	28	16	12	43	1.84
343399--343439	2	20.5	2	100	0	82	48	0	0	51	1.00
347787--347828	17	2.5	17	96	3	77	28	21	30	19	1.97
349371--349407	19	1.9	19	88	0	56	35	10	0	54	1.36
349483--349598	23	5.0	24	85	7	134	31	25	19	23	1.98
349483--349598	47	2.5	46	83	9	137	31	25	19	23	1.98
349724--349762	15	2.6	15	83	0	51	28	17	17	35	1.94
355751--355795	23	2.0	23	86	0	63	35	26	17	20	1.95
355763--355935	23	7.5	23	79	4	152	32	24	21	21	1.98
355813--355935	46	2.7	47	88	3	178	30	23	24	21	1.99
356414--356472	27	2.1	28	82	14	70	49	10	0	40	1.37
359184--359216	16	2.1	16	88	11	50	15	9	0	75	1.03
359186--359216	11	2.8	11	95	0	53	16	9	0	74	1.07
363475--363545	21	3.0	25	71	23	71	12	18	0	69	1.20
363475--363565	47	2.0	46	82	6	112	12	20	0	67	1.23
371364--371573	65	3.2	64	76	13	173	26	18	23	30	1.98
374167--374246	23	3.5	23	73	14	85	28	23	26	21	1.99
378160--378199	21	1.9	21	89	0	62	30	7	7	55	1.56
380144--380304	66	2.5	65	81	8	177	27	16	22	32	1.96
381801--381839	15	2.6	15	83	0	51	28	17	17	35	1.94
384276--384466	94	2.0	94	100	0	382	32	24	6	36	1.81
387791--387854	24	2.7	24	82	2	85	29	25	21	23	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
387793--387885	23	4.0	23	80	1	96	31	23	22	22	1.99
387793--387885	46	2.0	47	85	2	125	31	23	22	22	1.99
387988--388036	15	3.3	15	85	5	55	32	12	12	42	1.79
388003--388071	15	4.5	15	80	8	68	30	17	10	42	1.82
391062--391139	25	3.2	25	68	17	81	53	5	6	34	1.48
391064--391146	24	3.4	25	72	11	91	50	6	6	37	1.52
391060--391175	49	2.4	49	97	0	214	53	6	5	34	1.50
391088--391170	24	3.4	24	70	11	69	51	8	4	34	1.53
392625--392716	48	1.9	48	93	0	157	45	20	14	19	1.85
393645--393674	15	1.9	16	93	6	53	10	23	6	60	1.52
394671--394744	29	2.6	29	91	0	112	22	16	16	44	1.86
395960--395998	13	3.1	12	85	10	51	2	10	2	84	0.81
396380--396411	3	11.0	3	93	6	57	68	0	0	31	0.90
397104--397159	24	2.3	23	87	6	76	32	23	23	21	1.98
397151--397207	23	2.5	23	88	0	78	42	24	14	19	1.88
399497--399904	203	2.0	205	99	0	802	19	22	25	32	1.97
416492--416789	40	7.3	41	79	3	271	32	18	13	36	1.89
416502--416789	81	3.5	80	78	4	290	31	18	13	36	1.90
416492--416804	41	7.7	41	77	4	249	31	17	13	36	1.89
420236--420277	16	2.6	16	82	14	59	16	4	0	78	0.91
420356--420452	42	2.3	42	80	1	106	29	23	23	22	1.99
420568--420674	42	2.6	41	82	5	135	31	21	19	27	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
420806--420916	42	2.7	41	84	2	150	30	20	20	27	1.98
421045--421146	42	2.5	41	80	3	123	32	19	23	24	1.98
423530--423960	205	2.1	204	91	0	693	30	19	16	33	1.94
430222--430274	21	2.5	21	75	6	54	22	24	16	35	1.95
430264--430315	21	2.5	21	87	3	70	38	17	23	21	1.93
430301--430411	41	2.7	42	86	4	138	33	26	18	22	1.96
430305--430413	20	5.4	20	83	6	130	30	27	19	22	1.98
430386--430431	20	2.3	20	84	0	56	30	26	19	23	1.98
430300--430431	40	3.3	40	81	1	156	34	25	18	21	1.96
430648--430731	20	4.2	20	96	0	150	38	25	22	14	1.92

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31   32   
          33   34   35   36   37   38   39