genome.fa.s8053.2.7.7.80.10.50.1000.2.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: VEPZ01008053.1 Hibiscus syriacus cultivar Beakdansim tig00110548_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  6772376

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   

This is table  2  of  32  ( 3749 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)
155830--155877	15	3.1	15	88	11	71	58	0	20	20	1.40
156591--156652	29	2.1	29	93	0	106	30	20	22	25	1.98
159462--159497	17	2.1	17	89	0	54	38	0	30	30	1.58
162923--162979	19	2.8	21	78	7	64	17	26	31	24	1.97
162925--162979	22	2.7	19	77	8	56	18	27	29	25	1.98
167627--167669	17	2.6	16	77	7	50	2	11	4	81	0.93
167931--167978	15	3.1	14	83	16	60	58	0	25	16	1.38
167927--167980	26	2.1	24	83	16	65	59	0	22	18	1.38
168502--168540	19	2.1	19	95	0	69	43	5	12	38	1.65
171030--171064	2	18.5	2	88	11	56	51	0	0	48	1.00
171028--171075	8	5.6	9	83	14	57	50	0	0	50	1.00
171767--171850	15	5.8	15	68	14	52	47	0	0	52	1.00
171918--171990	36	2.0	36	86	0	101	20	34	10	34	1.88
185125--185178	21	2.8	19	84	13	74	51	9	9	29	1.65
187993--188032	21	1.9	21	85	10	55	15	5	37	42	1.68
189269--189312	23	1.9	23	81	9	54	25	6	4	63	1.38
189299--189323	4	6.2	4	100	0	50	24	0	0	76	0.80
189807--189851	23	2.0	23	82	4	56	28	13	11	46	1.77
199819--199854	14	2.6	14	91	4	56	36	5	25	33	1.79
200448--200498	3	17.0	3	100	0	102	66	0	0	33	0.92
206946--206987	3	14.0	3	94	0	75	33	2	0	64	1.07
207190--207247	24	2.4	24	88	0	89	58	18	10	12	1.61
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
208373--208531	5	31.6	5	68	18	55	74	5	5	15	1.17
208400--208496	14	6.9	14	71	17	58	75	5	5	14	1.15
208373--208483	43	2.5	42	74	20	102	73	5	4	16	1.18
208382--208598	10	22.8	9	67	20	61	70	5	6	17	1.27
208389--208531	61	2.4	62	77	14	140	74	4	5	14	1.17
209793--209849	23	2.4	25	82	5	73	54	1	7	36	1.38
209795--209843	17	2.9	17	87	6	64	53	2	8	36	1.43
209838--209866	15	1.9	15	100	0	58	55	0	0	44	0.99
210220--211381	84	13.8	84	84	1	1335	23	19	23	33	1.97
212577--212776	94	2.1	95	88	1	294	33	18	15	33	1.92
216737--216791	27	2.1	25	81	18	60	74	5	3	16	1.15
216815--216839	10	2.5	10	100	0	50	64	0	8	28	1.22
218071--218127	23	2.4	23	85	5	60	52	1	8	36	1.43
218070--218122	17	3.2	17	81	7	56	52	1	9	35	1.45
218117--218145	15	1.9	15	100	0	58	55	0	0	44	0.99
222077--222103	2	13.5	2	100	0	54	48	0	0	51	1.00
222731--222774	21	2.0	21	86	4	61	36	2	22	38	1.67
225652--225706	20	2.8	20	97	0	101	21	32	29	16	1.95
228568--228620	15	3.5	15	75	12	54	16	11	7	64	1.48
234370--234432	33	1.9	33	83	6	83	46	7	17	28	1.76
238301--238340	20	2.0	20	85	9	55	20	32	25	22	1.98
238303--238362	23	2.7	23	80	7	72	20	35	25	20	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
243736--243780	20	2.3	19	92	3	72	22	4	15	57	1.56
245657--245943	108	2.7	107	88	2	457	33	20	25	21	1.97
245647--245943	36	8.2	36	93	0	414	34	19	25	20	1.96
247757--247790	3	11.0	3	93	6	59	32	0	2	64	1.08
248678--248780	51	2.0	51	98	0	197	34	9	30	25	1.88
253513--253572	23	2.6	23	81	7	68	38	15	16	30	1.89
255792--255900	48	2.2	49	85	7	152	42	24	12	20	1.87
257218--257267	22	2.2	23	82	7	57	58	6	2	34	1.34
258642--258718	26	3.0	25	75	17	68	57	9	3	29	1.48
263964--264035	2	36.5	2	97	2	137	51	0	0	48	1.00
264268--264308	20	1.9	22	85	14	59	41	0	0	58	0.98
265195--265222	7	4.0	7	100	0	56	42	0	14	42	1.45
265788--265819	16	2.0	16	93	0	55	34	0	25	40	1.56
271558--271596	20	1.9	21	94	5	71	35	20	5	38	1.75
271558--271603	20	2.2	21	88	3	67	36	21	4	36	1.74
271758--271867	53	2.1	53	100	0	220	47	20	9	22	1.78
283357--283395	20	2.0	20	100	0	78	30	20	17	30	1.96
283353--283401	20	2.5	20	89	0	71	30	18	18	32	1.95
286050--286092	22	2.0	22	86	9	61	11	16	4	67	1.38
300460--300502	9	4.7	9	85	8	52	18	4	0	76	0.95
300460--300503	20	2.1	21	84	12	56	20	4	0	75	0.98
300474--300520	21	2.2	22	85	11	62	17	6	2	74	1.12
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
302466--303052	73	8.0	72	91	3	922	27	20	20	31	1.98
303650--303726	39	2.0	39	89	0	118	23	42	16	16	1.88
304823--304879	3	19.3	3	80	10	64	28	0	3	68	1.06
304800--304878	13	6.2	13	78	10	65	26	1	2	69	1.09
305129--305185	23	2.5	23	100	0	114	56	0	7	36	1.27
305712--305759	20	2.3	20	86	10	62	58	12	16	12	1.63
306790--306832	22	2.0	22	86	9	61	13	13	4	67	1.38
318107--318145	20	2.0	20	94	0	69	38	2	5	53	1.37
320462--320526	29	2.2	29	83	5	87	76	4	1	16	1.02
322373--322486	42	2.7	41	84	6	158	30	22	21	25	1.99
322523--322822	71	4.2	71	92	0	485	33	25	10	31	1.90
322886--323017	56	2.3	57	78	3	167	37	18	10	32	1.86
324959--325022	10	6.2	11	74	18	66	0	26	0	73	0.84
324962--325009	25	2.0	24	87	4	69	0	31	0	68	0.90
324959--325040	9	9.6	9	74	15	66	0	23	2	74	0.94
324959--325046	18	5.2	17	76	14	76	0	22	2	75	0.92
325002--325087	32	2.5	35	80	18	99	3	18	5	72	1.20
333525--333591	19	3.5	19	93	0	116	40	5	20	32	1.77
343477--343514	7	5.4	7	100	0	76	26	28	28	15	1.96
343504--343551	22	2.2	22	96	0	87	10	20	50	18	1.76
343511--343560	5	9.8	5	83	12	66	6	20	54	20	1.65
350761--350813	20	2.6	20	84	3	61	58	1	5	33	1.32
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
354797--354829	12	3.0	11	87	12	50	72	0	0	27	0.85
358148--358450	151	2.0	151	100	0	606	37	9	21	30	1.86
360718--360785	20	3.4	20	100	0	136	33	26	19	20	1.96
360773--360842	19	3.7	19	88	3	97	37	21	11	30	1.89
360674--360842	20	8.6	20	82	8	127	34	24	14	26	1.93
361700--361746	24	2.0	24	95	0	85	27	21	17	34	1.95
364333--364376	20	2.2	20	95	0	79	45	18	20	15	1.85
364426--364541	20	5.8	20	93	0	196	23	21	23	31	1.98
364431--364566	40	3.6	38	89	5	136	22	21	22	33	1.97
364633--364682	25	2.0	25	96	0	91	26	8	22	44	1.80
365392--365478	39	2.2	39	89	0	138	49	18	13	18	1.80
365658--365713	20	2.8	20	81	10	69	42	19	17	19	1.89
365868--365921	14	3.9	14	82	0	72	48	18	0	33	1.49
367298--367397	21	4.8	21	75	14	98	23	17	35	25	1.95
369578--369617	20	2.0	20	90	4	64	10	15	22	52	1.71
369877--369949	22	3.3	22	90	0	119	23	12	41	23	1.88
379568--379631	30	2.1	30	85	0	83	34	28	18	18	1.95
381057--381129	2	36.5	2	100	0	146	49	0	0	50	1.00
391059--391131	22	3.3	22	75	7	67	32	19	19	28	1.96
393288--393394	18	5.9	18	87	0	160	24	31	23	20	1.98
404159--404208	21	2.4	21	100	0	100	28	6	30	36	1.81
409270--409356	29	2.9	30	72	17	74	31	3	3	62	1.29
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
415481--415508	6	4.7	6	100	0	56	50	14	0	35	1.43
415513--415605	39	2.4	39	92	0	159	43	3	5	48	1.42
415609--415698	18	4.8	18	69	15	65	46	4	7	41	1.53
415591--415711	58	2.1	56	92	4	206	49	3	7	39	1.47
416702--416802	37	2.7	37	82	0	121	41	11	13	32	1.81
417402--417436	2	17.5	2	100	0	70	48	0	0	51	1.00
417673--417702	4	7.2	4	92	7	51	23	3	0	73	0.98
422189--422274	19	4.8	17	75	23	70	80	6	11	1	0.96
422193--422249	23	2.5	22	80	8	69	82	5	12	0	0.82
422195--422262	36	1.9	34	88	5	100	80	5	13	0	0.87

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