genome.fa.s8885.2.7.7.80.10.50.1000.2.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: VEPZ01008885.1 Hibiscus syriacus cultivar Beakdansim tig00112131_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  671647

Tables:   1   2   3   

This is table  2  of  3  ( 360 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)
185294--185349	20	2.8	20	91	0	76	37	23	21	17	1.94
186952--187041	41	2.2	42	88	4	139	21	15	41	22	1.90
187394--187469	20	3.8	20	87	1	109	38	22	23	15	1.93
187385--187509	33	3.3	39	75	12	111	43	22	20	13	1.87
187442--187500	19	3.4	19	73	22	74	47	20	18	13	1.82
187458--187516	14	3.9	14	76	20	64	49	23	16	10	1.77
187442--187521	33	2.4	33	97	0	151	47	22	18	11	1.80
187528--187594	19	3.8	19	67	18	63	13	17	19	49	1.80
187533--187624	33	2.8	33	89	0	148	11	16	21	50	1.77
188180--188227	18	2.7	18	93	0	87	14	12	45	27	1.81
189546--189604	20	3.0	20	87	0	73	44	22	18	15	1.87
189867--189910	22	2.0	22	95	0	79	18	15	45	20	1.85
190077--190214	41	3.4	41	81	2	179	22	15	25	36	1.94
190097--190210	20	5.7	20	79	6	122	22	16	27	33	1.96
190200--190272	21	3.5	21	90	1	103	23	20	17	38	1.93
190104--190232	41	3.2	41	82	5	129	24	16	25	34	1.95
194485--194523	20	2.0	20	94	0	69	48	17	12	20	1.80
194679--194789	48	2.5	44	84	10	127	32	30	4	32	1.78
196887--197015	64	2.0	64	93	0	222	36	20	15	27	1.93
199167--199208	20	2.1	20	100	0	84	21	38	16	23	1.93
200725--200791	34	2.0	34	96	0	125	34	5	17	41	1.74
201241--201309	6	11.5	6	100	0	138	0	15	50	33	1.45
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
201428--201484	21	2.7	21	91	0	87	29	28	17	24	1.97
201923--201956	16	2.1	17	88	5	52	44	5	5	44	1.52
209174--209208	12	2.9	12	95	0	61	40	0	5	54	1.24
209177--209211	11	3.1	11	88	8	52	40	0	5	54	1.24
209269--209396	36	3.6	35	82	11	152	44	6	5	43	1.52
209286--209392	39	2.9	35	80	14	126	44	5	6	42	1.53
209424--209462	15	2.6	15	100	0	78	10	17	0	71	1.12
210734--210803	4	16.8	4	77	14	70	22	4	0	72	1.01
210734--210804	28	2.6	27	80	14	90	22	4	0	73	1.01
215016--215066	2	26.0	2	96	4	95	50	0	0	49	1.00
217272--217303	15	2.1	16	94	5	57	46	15	6	31	1.71
219486--219654	38	4.5	37	77	8	139	42	4	8	44	1.56
219726--219750	13	1.9	13	100	0	50	0	12	0	88	0.53
222034--222078	18	2.6	17	85	3	63	22	26	13	37	1.91
229202--229236	18	1.9	18	88	11	54	62	0	5	31	1.18
231834--231909	31	2.4	32	76	6	84	38	13	11	36	1.81
234923--234993	30	2.3	30	80	4	79	39	8	25	26	1.84
237305--237365	27	2.3	26	85	2	86	45	21	18	14	1.84
237325--237380	27	2.1	26	83	3	67	44	23	17	14	1.85
256484--256621	59	2.3	60	82	7	165	31	16	18	33	1.94
258084--258214	42	3.1	41	80	7	140	36	19	20	23	1.95
258115--258254	42	3.3	42	83	2	156	38	18	18	24	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
259516--259617	43	2.4	41	75	18	109	28	19	18	33	1.96
266905--266955	21	2.4	21	83	0	66	45	17	33	3	1.67
267272--267386	43	2.7	43	87	2	171	24	23	19	33	1.97
267362--267687	43	7.6	43	80	6	268	30	25	19	23	1.98
267376--267670	129	2.3	129	80	1	333	31	26	19	22	1.98
273543--273574	3	10.7	3	100	0	64	68	0	0	31	0.90
278006--278054	12	4.1	12	81	5	55	51	0	0	48	1.00
277988--278044	23	2.4	23	85	5	69	49	1	0	49	1.11
278421--278468	23	2.1	23	88	7	71	50	0	0	50	1.00
282031--282122	32	3.0	31	82	3	114	35	20	16	27	1.94
283221--283300	21	3.9	21	88	6	103	28	22	5	43	1.74
300861--300981	58	2.0	60	85	6	167	37	15	13	33	1.87
301555--301596	19	2.2	19	100	0	84	42	4	4	47	1.45
307921--307964	2	22.0	2	100	0	88	50	0	0	50	1.00
309108--309169	2	31.0	2	100	0	124	50	0	0	50	1.00
310967--311161	6	32.5	6	98	0	381	49	0	16	32	1.50
318745--318785	18	2.3	18	91	4	66	29	4	0	65	1.13
320980--321051	23	3.0	24	73	21	69	25	5	4	65	1.32
326159--326241	40	2.1	40	100	0	166	46	7	26	19	1.75
327404--327455	26	2.0	26	85	3	70	57	5	3	32	1.40
333695--333725	2	15.5	2	100	0	62	48	0	0	51	1.00
337805--337845	21	2.0	21	85	0	55	43	4	34	17	1.70
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
345452--345578	48	2.5	48	79	6	128	34	21	14	29	1.93
345970--346045	20	3.8	20	89	1	116	19	32	31	15	1.94
346401--346470	34	2.1	32	86	5	95	32	15	27	24	1.95
347461--347506	3	16.0	3	80	17	53	67	2	28	2	1.14
347762--347809	18	2.7	18	100	0	96	39	8	25	27	1.84
349464--349525	21	3.0	21	86	9	92	19	37	27	16	1.93
349464--349525	20	3.0	20	88	6	90	19	37	27	16	1.93
350741--350786	14	3.4	14	77	14	51	50	6	0	43	1.28
351950--351986	2	18.5	2	100	0	74	48	0	0	51	1.00
356743--356848	54	2.0	54	96	0	194	39	14	7	38	1.74
374890--374931	14	3.0	14	82	6	50	0	21	2	76	0.90
383630--383667	16	2.4	16	86	8	51	57	0	5	36	1.21
386394--386575	41	4.5	41	92	4	271	15	20	25	39	1.91
386394--386576	81	2.2	82	90	5	291	15	20	25	39	1.91
386503--386572	20	3.5	20	70	18	72	12	22	24	40	1.89
387503--387657	20	7.6	20	66	9	80	39	24	20	16	1.92
387499--387682	41	4.5	41	87	3	255	38	23	19	18	1.93
387566--387675	21	5.3	21	67	4	89	36	25	17	20	1.94
388566--388649	29	2.9	29	82	5	98	33	11	7	47	1.68
393934--393964	13	2.4	13	100	0	62	61	0	22	16	1.34
397553--397611	21	2.8	20	82	7	66	11	23	38	25	1.89
403378--403432	21	2.6	21	97	0	101	14	25	43	16	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
417906--418009	48	2.2	48	89	5	158	49	6	2	41	1.44
419839--419981	40	3.5	40	77	16	132	49	9	12	27	1.72
419877--419981	43	2.5	42	80	11	135	50	11	11	26	1.72
422443--422488	22	2.1	22	84	8	58	43	0	10	45	1.39
436549--436599	19	2.7	19	85	8	61	39	1	3	54	1.30
439236--439271	16	2.2	16	90	5	54	44	5	19	30	1.73
439334--439380	23	2.0	23	95	0	85	40	8	19	31	1.81
439294--439456	87	1.9	87	92	0	272	42	12	13	30	1.82
439451--439970	198	2.6	195	77	7	530	31	15	13	39	1.86
441881--442268	182	2.1	182	90	0	607	28	15	12	42	1.84
443260--443295	2	18.0	2	100	0	72	0	50	0	50	1.00
444050--444082	15	2.3	15	89	5	50	51	0	6	42	1.26
450307--450384	34	2.3	33	82	12	95	20	24	2	52	1.59
450401--450432	16	1.9	17	93	6	57	15	12	9	62	1.54
450395--450472	17	4.6	17	77	4	68	16	12	7	62	1.52
450603--451311	65	10.9	65	88	0	997	33	21	14	31	1.93
454392--454501	34	3.3	33	86	9	161	31	5	18	44	1.72
461157--461184	3	9.3	3	100	0	56	35	0	0	64	0.94
462581--462679	19	5.6	18	67	21	59	47	2	1	49	1.19
462581--462617	18	2.0	19	89	5	58	51	0	0	48	1.00
463454--463512	27	2.1	27	78	9	57	32	3	1	62	1.21
466683--466714	15	2.1	15	94	0	55	25	18	9	46	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
474023--474073	13	3.8	14	77	15	54	78	0	15	5	0.93
474437--474471	18	1.9	18	94	0	61	34	2	5	57	1.37
475627--476159	112	4.7	111	80	7	593	39	15	17	26	1.90
475634--476159	234	2.3	222	83	6	624	39	15	17	26	1.90
476483--476529	3	15.3	3	95	4	85	34	0	2	63	1.06
477946--477981	19	2.0	17	89	10	54	52	0	0	47	1.00
481338--481375	20	1.9	20	100	0	76	36	5	26	31	1.79
494874--494912	20	2.0	20	94	0	69	53	10	10	25	1.66
505625--505673	24	2.0	24	84	0	62	28	12	14	44	1.81
506916--506991	27	2.8	27	85	0	98	31	21	15	31	1.94

Tables:   1   2   3