genome.fa.s8166.2.7.7.80.10.50.1000.2.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: VEPZ01008166.1 Hibiscus syriacus cultivar Beakdansim tig00110747_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2544747

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

This is table  2  of  10  ( 1195 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)
222385--222699	20	16.7	20	76	13	258	36	21	20	21	1.95
222410--222674	54	4.8	54	80	7	291	37	21	20	21	1.95
222385--222586	74	2.7	74	79	8	214	38	21	20	20	1.94
222558--222742	73	2.5	72	85	4	237	36	20	19	23	1.95
222850--222932	24	3.1	25	80	19	105	51	12	3	32	1.56
222848--222937	30	3.2	30	84	15	138	52	13	3	31	1.56
224311--224402	42	2.2	42	82	3	105	21	17	35	25	1.95
224326--224412	21	4.1	21	72	0	75	22	18	36	21	1.95
224909--224982	20	3.7	20	96	0	121	43	21	16	18	1.88
224909--225004	40	2.4	40	82	3	113	39	21	16	21	1.92
225047--225114	20	3.4	20	91	0	109	17	19	26	36	1.94
227297--227354	22	2.6	22	77	0	71	20	17	39	22	1.92
227526--227636	20	5.6	20	82	4	107	23	21	25	29	1.99
227526--227636	40	2.8	40	79	5	125	23	21	25	29	1.99
228620--228644	3	8.3	3	100	0	50	36	0	0	64	0.94
230303--230366	27	2.4	28	77	12	71	18	0	12	68	1.20
234447--234512	14	4.8	14	77	17	59	72	4	19	3	1.15
237188--237266	36	2.2	35	82	10	97	25	21	7	45	1.78
237204--237272	36	1.9	36	93	0	120	24	21	10	43	1.83
237392--237632	66	3.6	67	81	6	240	32	17	12	37	1.87
237753--238262	139	3.7	138	82	2	567	29	27	17	25	1.97
237757--238262	278	1.8	278	85	1	719	29	27	16	25	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
242835--243037	40	5.1	40	93	0	343	33	26	17	23	1.96
249804--249842	13	2.9	14	92	7	71	66	12	0	20	1.24
250106--250130	5	5.0	5	100	0	50	0	80	0	20	0.72
252161--252217	29	2.0	28	89	3	87	19	26	21	33	1.97
253768--253798	16	1.9	16	93	0	53	58	3	0	38	1.15
263978--264085	43	2.5	43	87	0	153	36	23	21	19	1.95
271065--271095	12	2.6	12	100	0	62	6	35	6	51	1.53
272255--272288	17	2.0	17	88	11	52	50	0	20	29	1.49
275244--275805	8	77.6	7	71	20	199	53	2	9	34	1.46
275285--275323	14	2.8	14	88	7	53	61	0	7	30	1.24
275266--275392	22	5.8	22	78	10	84	55	3	6	33	1.43
275261--275610	103	3.5	103	82	12	373	54	2	10	33	1.48
275450--275573	45	2.8	45	91	2	198	51	1	11	35	1.47
275450--275610	45	3.6	44	85	8	186	52	1	13	33	1.48
275615--275678	22	3.0	22	80	8	78	50	4	9	35	1.56
275687--275714	2	14.0	2	100	0	56	50	0	0	50	1.00
275723--275805	14	5.5	14	70	24	53	54	0	9	36	1.33
275277--275807	29	17.8	29	68	19	155	53	2	9	34	1.46
275757--275849	47	2.0	44	82	10	107	51	2	6	39	1.40
275876--275933	18	3.4	17	69	26	50	51	0	8	39	1.33
275751--275906	14	11.2	14	65	21	62	53	1	5	40	1.31
276614--276670	22	2.6	22	88	5	80	42	35	0	22	1.54
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
279565--279632	20	3.4	20	79	0	73	16	8	14	60	1.58
279729--279779	23	2.2	23	92	0	84	25	15	21	37	1.93
280702--280750	12	3.9	13	75	20	50	69	4	6	20	1.27
280705--280744	12	3.3	12	82	10	55	70	5	5	20	1.26
280705--280759	24	2.4	24	85	11	71	72	3	7	16	1.21
280980--281032	27	2.0	26	88	3	79	30	24	16	28	1.97
287057--287241	68	2.7	69	88	4	270	29	25	14	30	1.95
287270--287319	21	2.4	21	86	0	73	32	26	0	42	1.56
287451--288133	58	11.8	58	88	0	967	34	19	11	34	1.88
292607--292860	68	3.8	68	91	0	384	29	25	16	27	1.97
293076--293704	58	10.8	58	91	1	999	33	20	11	33	1.89
294036--294090	22	2.7	20	83	8	65	27	25	14	32	1.95
296002--296049	21	2.3	21	100	0	96	41	18	16	22	1.90
296060--296099	19	2.2	18	86	13	55	72	5	7	15	1.24
296712--296761	20	2.5	20	100	0	100	38	4	0	58	1.17
298143--298178	15	2.4	15	85	0	54	27	22	16	33	1.95
298458--298488	16	1.9	16	93	0	53	54	16	9	19	1.68
298541--298568	14	2.0	14	100	0	56	42	0	7	50	1.30
301363--301405	21	2.1	21	83	8	54	44	13	20	20	1.86
309883--309941	3	19.7	3	100	0	118	67	0	0	32	0.91
312684--312731	3	16.0	3	78	8	53	62	2	0	35	1.07
312662--312713	19	2.5	21	84	9	63	55	1	0	42	1.10
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
313065--314076	113	8.8	113	85	7	1274	28	19	14	37	1.91
314088--314264	75	2.3	76	91	2	277	33	21	20	24	1.97
314945--315004	22	2.7	22	86	0	93	41	11	11	35	1.78
316899--316933	18	2.1	16	89	10	52	88	8	0	2	0.61
323362--323424	31	2.0	31	100	0	126	31	15	19	33	1.93
325844--325895	17	3.2	17	91	5	81	5	17	0	76	0.97
332518--332565	3	17.0	3	79	12	57	64	2	0	33	1.05
333951--334004	20	2.7	20	97	0	99	51	14	24	9	1.71
333771--334166	202	2.0	202	87	2	580	43	14	17	25	1.86
342485--342549	21	3.1	21	97	0	121	41	10	33	13	1.80
342583--342649	33	2.0	33	85	0	89	32	1	41	23	1.64
342833--342871	18	2.2	18	90	0	60	56	0	38	5	1.22
344403--344451	19	2.6	19	93	6	82	34	2	8	55	1.41
345002--345048	21	2.2	21	88	0	76	34	10	19	36	1.86
345018--345979	200	4.8	199	82	6	1106	36	15	16	31	1.90
347454--347493	6	6.7	6	88	0	53	42	5	32	20	1.73
347454--347493	12	3.3	12	92	0	62	42	5	32	20	1.73
347454--347493	18	2.2	18	90	0	62	42	5	32	20	1.73
348485--348536	25	2.1	25	96	0	95	32	9	11	46	1.73
348798--348836	15	2.6	15	87	0	51	38	17	7	35	1.79
348837--349601	201	3.8	198	83	3	854	38	12	16	32	1.86
353711--354613	201	4.5	198	83	6	1040	39	13	15	31	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
354633--354928	86	3.4	86	95	0	511	31	16	11	40	1.83
354800--354844	23	2.0	23	90	0	72	40	20	6	33	1.78
354879--354951	23	3.2	23	88	0	101	34	19	6	39	1.78
359387--359415	2	14.5	2	100	0	58	48	0	0	51	1.00
375486--375593	45	2.4	44	90	1	162	34	9	23	33	1.86
384598--384855	138	1.9	139	85	8	366	29	13	17	38	1.89
384767--384963	95	2.1	95	97	0	367	22	17	20	39	1.92
407285--407410	33	3.8	32	73	4	108	29	9	20	40	1.84
408193--408228	17	2.1	17	100	0	72	50	27	5	16	1.68
413699--413999	45	6.7	45	88	2	372	31	19	8	40	1.81
413711--414038	135	2.4	135	81	5	342	31	21	8	38	1.83
414449--414490	20	2.1	20	86	0	57	33	26	9	30	1.88
416684--416754	36	2.0	36	97	0	133	25	29	2	42	1.69
421969--422085	42	2.8	42	77	2	119	29	19	21	29	1.98
423654--423918	137	1.9	137	85	4	365	21	21	20	35	1.96
424494--424528	17	2.0	18	88	5	54	51	14	5	28	1.65
426078--426109	13	2.4	14	85	15	50	37	6	12	43	1.68
426082--426110	13	2.3	13	94	5	51	37	6	10	44	1.65
428300--428357	22	2.6	23	83	2	73	25	22	29	22	1.99
434088--434128	20	2.1	20	90	4	66	9	21	39	29	1.86
434529--434577	18	2.7	18	83	3	62	46	14	0	38	1.44
434562--434626	25	2.7	24	75	15	71	44	7	0	47	1.31
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
434592--434668	30	2.6	30	87	0	100	42	10	0	46	1.38
434760--434861	30	3.4	30	84	1	123	40	4	0	53	1.29
434931--434983	29	1.9	26	96	4	79	52	0	9	37	1.34
434895--435011	59	2.0	59	88	3	173	52	2	10	34	1.49
434909--435011	30	3.5	30	89	5	156	57	1	7	33	1.39
441763--441854	3	31.3	3	95	4	170	32	0	0	67	0.91
442101--442151	28	1.9	27	88	11	79	37	3	1	56	1.29
442354--442389	2	18.0	2	94	0	63	50	2	0	47	1.15
442480--442506	13	2.1	13	100	0	54	62	7	7	22	1.46
443688--443756	3	21.0	3	77	16	66	60	0	1	37	1.06

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