genome.fa.s6270.2.7.7.80.10.50.1000.2.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: VEPZ01006270.1 Hibiscus syriacus cultivar Beakdansim tig00014949_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  949592

Tables:   1   2   3   4   5   

This is table  2  of  5  ( 546 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)
268346--268454	48	2.3	47	85	3	137	47	17	16	18	1.83
268346--268454	24	4.5	25	78	6	109	47	17	16	18	1.83
269985--270084	31	3.2	31	63	31	77	27	27	10	36	1.88
269990--270112	63	2.0	63	100	0	246	27	28	9	34	1.89
271029--271060	7	4.4	7	92	7	55	25	28	34	12	1.92
271071--271116	18	2.6	18	100	0	92	8	21	52	17	1.71
271042--271107	26	2.6	27	77	22	79	16	24	43	15	1.86
271030--271089	8	8.5	8	75	25	64	20	25	40	15	1.90
271037--271094	13	4.3	13	93	4	89	17	24	43	15	1.87
272412--272464	21	2.5	21	93	0	97	26	20	20	32	1.98
273044--273079	13	2.5	15	82	17	58	30	11	0	58	1.33
274338--274421	2	42.5	2	95	2	152	50	0	1	48	1.08
287517--287541	10	2.5	10	100	0	50	72	20	8	0	1.10
294515--294558	21	2.1	21	82	0	52	9	34	15	40	1.79
295338--295372	13	2.7	13	90	0	52	60	5	0	34	1.21
295657--295694	20	1.9	20	88	0	58	34	34	15	15	1.90
303789--303829	19	2.2	19	86	4	57	53	0	2	43	1.13
303826--303863	2	19.0	2	100	0	76	50	0	0	50	1.00
304320--304361	16	2.3	20	84	15	56	52	0	4	42	1.22
309637--309927	43	6.8	43	87	2	379	32	23	25	18	1.97
315379--315523	66	2.2	67	80	13	158	31	19	20	28	1.97
317205--317254	25	2.0	25	84	0	64	26	16	22	36	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
328254--328279	13	2.0	13	100	0	52	23	0	0	76	0.78
336950--336974	2	12.5	2	100	0	50	52	0	0	48	1.00
336964--336998	17	2.1	17	88	0	52	65	0	0	34	0.93
337435--337472	20	1.9	20	84	10	51	52	2	2	42	1.29
337653--337696	10	4.2	10	77	11	52	54	2	2	40	1.25
337652--337692	22	1.9	21	85	5	55	53	2	2	41	1.27
338507--338539	16	2.1	16	94	5	59	78	0	6	15	0.93
339983--340235	86	3.0	86	88	0	364	25	19	20	33	1.96
346020--346061	20	2.1	20	86	0	57	26	40	11	21	1.88
348515--348557	18	2.3	18	84	11	52	46	2	2	48	1.27
348550--348579	2	15.0	2	100	0	60	50	0	0	50	1.00
353675--353699	9	2.8	9	100	0	50	24	36	0	40	1.55
359788--359823	2	18.5	2	94	5	65	52	0	0	47	1.00
359752--359864	55	2.0	56	86	11	162	46	1	5	46	1.36
359806--359909	41	2.7	40	77	18	123	48	1	5	44	1.38
359804--359909	36	2.7	39	80	16	123	48	1	5	44	1.37
360426--360467	21	2.0	21	85	0	57	45	23	16	14	1.84
381071--381119	2	24.5	2	100	0	98	51	0	0	48	1.00
407320--407439	57	2.1	57	89	3	179	28	18	15	37	1.92
408612--408674	2	32.0	2	88	3	92	44	3	0	52	1.17
408739--408836	33	3.2	33	65	28	97	24	24	10	40	1.86
408738--408855	59	2.0	59	100	0	236	25	22	10	42	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
412458--412595	57	2.4	57	80	12	140	42	10	7	40	1.66
436310--436431	32	3.9	31	86	6	156	25	29	26	18	1.98
436310--436431	64	1.9	63	86	1	172	25	29	26	18	1.98
436312--436462	64	2.4	62	80	7	162	29	27	25	17	1.98
437642--437672	11	2.8	11	95	0	53	48	3	12	35	1.58
442852--442967	61	1.9	61	91	3	189	24	31	18	25	1.98
447748--447777	13	2.4	12	94	5	51	80	0	0	20	0.72
447748--447777	6	4.8	6	92	8	51	80	0	0	20	0.72
448871--448913	18	2.7	15	77	19	50	30	18	4	46	1.69
448905--448969	29	2.2	31	81	10	73	33	20	6	40	1.77
450184--450249	2	33.0	2	100	0	132	50	0	0	50	1.00
451420--451449	13	2.3	13	100	0	60	83	0	0	16	0.65
458969--459019	23	2.1	23	85	7	66	68	0	9	21	1.18
460365--460395	4	7.8	4	100	0	62	77	0	0	22	0.77
460363--460467	8	12.5	8	76	11	52	78	2	6	12	1.06
460363--460467	12	9.1	11	71	11	50	78	2	6	12	1.06
460571--460618	21	2.3	20	82	10	53	77	4	2	16	1.03
461901--461978	3	24.7	3	76	14	52	70	3	1	24	1.11
461907--461985	28	2.9	27	72	22	76	72	3	1	22	1.08
462005--462071	14	4.7	14	75	15	66	49	5	2	41	1.42
462120--462180	12	5.1	12	74	7	61	45	4	6	42	1.51
462062--462193	36	3.6	36	88	4	185	46	4	5	43	1.46
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
462305--462366	30	2.1	30	87	0	88	43	8	3	45	1.49
462915--463479	84	6.8	84	80	2	591	25	18	23	31	1.97
462909--463445	249	2.1	249	85	3	720	25	18	23	31	1.98
468623--468723	38	2.7	36	75	18	89	75	2	10	10	1.16
468659--468688	14	2.2	13	94	5	51	83	0	3	13	0.77
468800--468844	18	2.6	17	75	6	54	71	0	8	20	1.12
470175--470209	10	3.7	10	88	11	56	65	0	0	34	0.93
470205--470259	25	2.2	25	87	6	76	74	5	0	20	1.01
470169--470256	28	3.1	28	75	20	85	72	3	0	23	0.99
470310--470558	35	6.9	36	82	11	228	47	6	3	43	1.44
470333--470560	37	6.3	37	78	11	204	46	5	3	44	1.44
474139--474214	11	6.5	11	68	25	50	63	3	3	28	1.30
474184--474243	15	3.8	17	73	13	65	70	0	6	23	1.11
474189--474232	19	2.3	19	84	7	54	70	0	4	25	1.06
475604--475671	3	22.0	3	82	5	82	60	0	1	38	1.06
475804--476819	76	13.4	76	96	0	1876	35	21	21	21	1.96
477226--477482	112	2.3	112	89	4	392	29	18	14	37	1.90
477354--477398	23	1.9	23	82	13	56	15	24	6	53	1.66
477390--477555	73	2.3	73	86	4	219	34	16	16	33	1.91
477278--477671	186	2.1	185	84	7	530	29	17	15	36	1.91
477463--477743	113	2.5	113	82	6	397	29	17	15	37	1.91
478147--478201	22	2.5	22	85	11	85	36	14	12	36	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
478538--478706	54	3.2	54	87	2	227	24	21	15	37	1.92
480865--481239	92	4.1	92	92	1	570	35	22	13	28	1.92
480865--481238	185	2.0	185	90	2	581	35	22	13	28	1.92
483546--483578	18	1.9	17	88	11	50	0	18	3	78	0.87
489141--489216	11	6.5	11	68	25	50	63	3	3	28	1.30
489186--489245	15	3.8	17	73	13	65	70	0	6	23	1.11
489191--489234	19	2.3	19	84	7	54	70	0	4	25	1.06
490600--490667	3	22.0	3	82	5	82	60	0	1	38	1.06
498673--498704	2	16.0	2	100	0	64	50	0	0	50	1.00
507936--507983	15	3.2	15	90	0	78	8	66	16	8	1.42
512622--512659	18	2.1	18	100	0	76	15	34	21	28	1.94
524229--524266	20	1.9	20	94	0	67	26	2	21	50	1.62
531050--531090	2	20.5	2	89	0	64	53	2	0	43	1.13
533336--533378	22	2.0	22	86	9	61	48	27	9	13	1.73
533386--533429	16	2.8	15	76	10	52	50	29	11	9	1.69
535096--535136	11	3.6	11	87	6	55	65	4	4	24	1.32
535156--535268	16	7.3	15	66	21	56	65	0	5	28	1.20
535155--535204	24	2.0	27	88	11	79	68	2	0	30	1.01
535210--535266	25	2.3	25	81	6	71	66	0	7	26	1.17
535180--535263	13	6.5	13	72	21	61	63	1	7	28	1.28
535827--535922	37	2.6	36	85	1	129	30	12	15	41	1.84
536652--543845	106	68.0	106	90	0	10838	23	17	24	34	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
544677--544731	22	2.5	22	90	0	92	29	12	25	32	1.93
545345--545407	13	4.8	13	71	19	51	1	11	4	82	0.88
545351--545416	30	2.2	30	83	8	80	1	15	4	78	0.98
548827--548863	19	1.9	19	89	10	58	67	0	24	8	1.17
550028--550106	22	3.6	21	75	16	65	75	5	2	16	1.08
550629--550658	12	2.6	11	94	5	51	63	6	6	23	1.43
550676--550727	25	2.0	28	88	11	83	69	1	0	28	0.99
551345--551440	37	2.6	36	86	4	138	30	12	15	41	1.84
554780--554815	18	2.1	18	89	5	56	55	0	5	38	1.23
555152--555188	19	1.9	19	94	0	65	40	10	8	40	1.70

Tables:   1   2   3   4   5