genome.fa.s8419.2.7.7.80.10.50.1000.3.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: VEPZ01008419.1 Hibiscus syriacus cultivar Beakdansim tig00111199_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1038719

Tables:   1   2   3   4   5   

This is table  3  of  5  ( 485 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)
377497--377537	21	1.9	22	85	5	57	41	19	14	24	1.89
380190--380245	28	2.0	28	89	0	85	35	12	7	44	1.70
383937--384007	2	35.5	2	100	0	142	49	0	0	50	1.00
384416--384474	28	2.1	28	96	0	109	49	22	3	25	1.65
388770--388814	14	3.4	14	77	17	51	55	0	0	44	0.99
389122--389169	17	3.0	15	78	21	53	18	2	4	75	1.07
391040--391076	18	2.1	18	100	0	74	37	16	10	35	1.83
391971--392011	21	1.9	22	85	5	57	41	19	14	24	1.89
392597--397141	915	5.0	915	91	1	7178	39	15	16	28	1.89
401923--402132	65	3.2	65	82	9	234	25	20	23	30	1.98
407843--407885	20	2.2	20	87	8	61	44	25	0	30	1.55
408286--408314	3	9.7	3	100	0	58	68	0	0	31	0.89
408839--408876	2	19.0	2	100	0	76	50	0	0	50	1.00
409434--409495	27	2.3	27	80	5	72	40	0	0	59	0.97
414091--414120	15	1.9	15	93	6	51	83	3	0	13	0.77
414221--414348	14	9.2	13	67	16	53	72	3	5	18	1.17
415059--415090	14	2.3	14	100	0	64	40	6	15	37	1.73
423375--423406	16	2.0	17	88	11	50	31	9	6	53	1.58
425463--425494	2	16.0	2	100	0	64	50	0	0	50	1.00
426707--426797	2	45.5	2	100	0	182	50	0	0	49	1.00
427716--427783	32	2.1	32	100	0	136	64	0	2	32	1.08
428390--428466	38	2.0	38	100	0	154	45	12	18	23	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
437017--437092	30	2.6	30	85	2	100	11	28	23	35	1.90
437056--437099	20	2.2	20	91	0	70	11	29	25	34	1.91
438173--438259	41	2.1	41	95	0	156	18	19	22	39	1.93
438173--438244	22	3.4	22	67	11	69	18	19	25	37	1.94
438194--438259	19	3.3	19	70	12	60	19	19	19	40	1.91
438344--438433	6	15.3	6	97	2	166	34	48	16	0	1.47
439061--439170	22	5.3	22	82	8	106	39	23	19	18	1.92
439102--439149	19	2.5	19	93	0	87	43	18	18	18	1.88
439040--439170	60	2.1	63	88	4	196	38	22	19	19	1.93
446304--446345	19	2.3	19	84	8	52	57	0	0	42	0.99
446606--446647	17	2.5	17	84	3	59	54	0	2	42	1.13
447031--447531	262	2.0	252	83	9	635	36	11	10	41	1.76
448050--448083	17	2.1	17	88	5	52	47	0	0	52	1.00
448092--448638	302	1.8	302	87	2	823	37	11	12	38	1.79
447293--448736	595	2.5	586	84	7	1853	38	10	11	40	1.75
448624--448665	23	1.9	22	90	9	68	64	0	0	35	0.94
448624--448686	20	3.1	20	82	11	58	60	0	0	39	0.97
449541--449590	22	2.3	21	79	6	55	24	16	2	58	1.49
454083--454125	20	2.2	20	100	0	86	27	23	4	44	1.73
454840--454877	12	3.2	12	81	3	51	44	0	0	55	0.99
466143--466591	141	3.3	134	79	7	464	27	28	17	26	1.98
466786--466824	3	12.7	3	84	15	53	30	0	2	66	1.05
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
466786--466823	15	2.7	14	88	11	60	28	0	2	68	1.03
467907--468002	2	48.0	2	100	0	192	50	0	0	50	1.00
473500--473755	99	2.5	99	85	4	332	20	17	25	36	1.94
474887--474934	8	5.6	8	81	13	60	0	10	2	87	0.62
474887--474934	17	2.7	18	87	12	73	0	10	2	87	0.62
485380--485425	24	2.0	23	82	4	56	67	6	15	10	1.40
487102--487135	17	2.0	17	100	0	68	23	11	17	47	1.81
488188--488233	19	2.3	20	81	7	58	28	30	15	26	1.96
488312--488404	21	4.5	21	78	4	100	39	18	24	17	1.91
488312--488404	41	2.3	41	100	0	186	39	18	24	17	1.91
488331--488465	41	3.3	41	82	6	132	37	21	21	19	1.94
488393--488507	20	5.7	20	82	6	115	31	26	18	24	1.97
488390--488527	41	3.4	41	79	6	154	34	24	17	23	1.96
488959--489022	20	3.2	20	86	0	83	15	18	21	43	1.87
490342--490386	18	2.5	18	88	0	72	26	44	15	13	1.83
490868--490934	20	3.4	20	81	2	73	38	23	22	14	1.92
490887--490988	33	2.8	34	75	22	93	43	21	21	13	1.87
490868--490988	19	6.6	19	75	13	83	42	22	20	14	1.87
491000--491057	14	3.9	14	79	16	71	8	17	25	48	1.75
490984--491073	32	2.8	32	89	3	135	10	17	25	46	1.79
490995--491073	32	2.4	33	95	2	142	10	18	24	46	1.80
490995--491073	14	4.8	17	71	22	62	10	18	24	46	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
491046--491114	21	3.5	20	77	13	70	15	20	23	40	1.91
493673--493719	24	2.0	24	91	0	76	29	19	17	34	1.94
493673--493731	24	2.5	24	85	0	73	28	16	18	35	1.93
496222--496280	19	3.4	19	73	22	74	45	18	22	13	1.84
496407--496442	14	2.6	14	86	4	56	47	25	0	27	1.52
499922--499978	20	2.8	21	80	12	57	45	17	21	15	1.85
499947--500083	33	4.0	33	84	7	148	43	21	23	11	1.86
500017--500105	38	2.3	38	94	0	151	48	21	19	11	1.79
499922--500096	19	9.6	19	76	14	163	45	20	22	12	1.84
500101--500145	19	2.4	19	88	0	72	6	15	24	53	1.66
500695--500747	20	2.7	20	93	0	88	26	20	28	24	1.99
500860--500900	21	2.0	21	85	0	55	34	31	17	17	1.93
501105--501291	93	2.0	93	97	1	358	37	16	8	37	1.78
506233--506265	15	2.3	15	89	5	50	27	33	15	24	1.95
514331--514617	155	1.9	155	84	4	393	36	8	18	36	1.80
518850--518927	40	1.9	39	87	5	111	47	30	0	21	1.51
522400--522515	21	5.6	21	69	10	60	32	27	18	21	1.96
522503--522655	20	7.7	20	88	3	75	33	27	19	18	1.96
522503--522654	40	3.8	40	88	1	135	33	27	19	19	1.96
522503--522655	60	2.6	59	86	3	207	33	27	19	18	1.96
523032--523104	33	2.2	33	92	2	121	12	21	17	47	1.80
523184--523290	21	5.6	20	73	17	102	46	18	21	13	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
523245--523301	14	3.7	14	75	20	60	43	22	24	8	1.81
523238--523317	33	2.4	33	95	0	142	47	22	21	8	1.78
523313--523440	19	7.1	19	71	19	87	10	25	18	45	1.82
523335--523391	14	3.7	14	75	20	60	8	24	22	43	1.81
523318--523440	33	3.5	33	88	10	165	10	24	18	46	1.81
523376--523440	21	3.1	21	82	4	96	10	26	15	47	1.78
525105--525480	93	4.1	93	98	0	727	22	12	19	45	1.83
525546--525602	14	3.7	14	72	20	51	43	24	22	8	1.81
525560--525651	19	5.4	18	72	24	65	46	28	17	7	1.75
525528--525651	33	3.7	33	91	1	185	45	27	17	8	1.78
525577--525635	14	3.9	14	76	20	64	47	28	16	6	1.72
525647--525786	19	7.6	19	80	8	146	10	19	25	45	1.81
527707--527742	14	2.6	14	95	0	63	33	0	22	44	1.53
527833--527920	19	4.8	19	79	14	114	48	15	21	13	1.80
527833--527939	53	2.0	53	96	1	198	46	16	23	13	1.82
527930--528223	72	4.2	69	78	13	280	13	22	18	45	1.85
527935--528204	105	2.6	109	91	7	434	13	22	17	46	1.83
527935--528204	53	5.1	52	90	8	415	13	22	17	46	1.83
530488--530512	12	2.1	12	100	0	50	0	28	0	72	0.86
530687--530733	24	2.0	24	87	8	69	38	21	14	25	1.92
531426--531654	20	11.4	20	85	1	235	19	18	25	36	1.94
531622--531719	21	4.8	20	75	10	81	21	19	21	37	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
531622--531720	42	2.4	43	77	11	100	21	19	22	37	1.94
534647--534695	24	2.0	24	100	0	98	32	24	4	38	1.74
545364--546277	457	2.0	457	99	0	1801	37	23	13	25	1.91
566752--566828	25	3.1	24	85	5	100	20	19	22	37	1.94
570104--570132	12	2.4	12	100	0	58	0	41	31	27	1.56
575651--575690	21	1.9	21	85	10	55	35	10	2	52	1.48
587825--587869	22	2.0	22	95	0	81	15	13	20	51	1.76
592901--592937	14	2.4	16	86	13	60	32	0	5	62	1.18
593567--593759	65	3.0	62	82	8	185	41	6	29	21	1.79
593606--593759	65	2.4	65	86	6	215	42	7	27	22	1.81

Tables:   1   2   3   4   5