genome.fa.s5168.2.7.7.80.10.50.1000.2.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: VEPZ01005168.1 Hibiscus syriacus cultivar Beakdansim tig00011662_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  818383

Tables:   1   2   3   4   

This is table  2  of  4  ( 430 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)
230760--230829	27	2.6	26	75	6	68	27	10	1	61	1.36
234481--234540	3	20.0	3	100	0	120	66	0	0	33	0.92
234796--234905	56	2.0	56	88	0	166	29	18	23	29	1.98
235119--235161	20	2.1	21	87	8	63	44	0	2	53	1.13
235086--235172	31	2.8	31	82	6	97	41	0	3	55	1.17
235234--235294	27	2.5	23	84	12	77	60	4	1	32	1.28
235385--235452	31	2.3	30	78	12	77	57	1	2	38	1.23
236081--236128	20	2.3	21	80	13	55	0	41	0	58	0.98
239924--240284	194	1.9	192	80	3	429	39	11	10	38	1.75
241163--241196	17	1.9	17	88	5	50	61	2	0	35	1.11
241169--241211	17	2.5	17	84	3	50	65	2	0	32	1.06
254533--254572	17	2.4	17	95	0	71	30	17	12	40	1.86
254626--254688	17	3.7	17	89	4	92	38	9	7	44	1.66
254579--254688	34	3.3	33	81	6	114	35	13	7	43	1.72
254629--254715	17	5.1	17	85	2	88	40	12	8	39	1.73
254603--254715	34	3.4	34	81	6	97	38	14	7	39	1.73
255259--255302	21	2.0	22	82	4	54	34	20	11	34	1.88
256516--256585	17	4.1	17	80	5	79	37	8	14	40	1.76
256516--256585	34	2.1	34	84	10	90	37	8	14	40	1.76
256523--256611	17	5.3	16	77	4	61	40	10	12	37	1.77
256569--256632	33	1.9	33	84	12	87	43	10	12	32	1.77
257568--257616	21	2.5	19	76	6	53	69	6	4	20	1.27
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
266856--266925	21	3.5	20	75	22	67	21	21	18	38	1.93
273381--273504	40	3.1	40	84	1	142	32	24	19	24	1.98
282491--282533	20	2.1	21	87	8	63	13	16	0	69	1.19
285815--285864	24	2.1	24	85	7	66	24	2	14	60	1.45
287887--288085	107	1.9	108	83	9	264	36	17	9	37	1.81
290305--290429	46	2.7	46	97	0	232	19	22	12	45	1.84
290346--290501	72	2.2	72	94	0	267	20	22	10	46	1.82
290416--290677	46	5.8	45	86	6	354	21	23	9	46	1.80
290305--290547	118	2.1	118	95	0	432	20	21	11	46	1.83
290592--290679	26	3.6	25	72	18	96	22	22	7	46	1.78
291245--291300	19	2.8	20	83	5	78	30	26	14	28	1.95
291322--291372	19	2.7	18	81	9	57	17	29	19	33	1.95
294428--294597	53	3.2	53	87	4	254	27	17	20	35	1.95
296117--296162	3	15.3	3	100	0	92	67	0	0	32	0.91
296194--296237	23	1.9	23	90	0	70	50	9	2	38	1.47
296252--296291	2	20.0	2	100	0	80	50	0	0	50	1.00
296284--296329	18	2.4	19	78	10	58	43	4	2	50	1.34
296296--296330	18	1.9	18	94	0	61	45	5	0	48	1.26
306989--307046	30	1.9	30	86	6	82	31	3	24	41	1.71
308790--308857	19	3.6	19	83	0	73	42	5	17	33	1.74
308888--308946	13	4.5	13	73	14	59	57	0	16	25	1.39
309845--309901	29	2.0	29	96	0	105	14	33	31	21	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
309919--309943	12	2.1	12	100	0	50	40	8	36	16	1.77
309983--310056	29	2.6	29	86	0	103	10	39	29	20	1.86
310060--310123	33	1.9	33	90	6	103	9	40	23	26	1.85
310058--310181	10	11.7	10	72	13	52	11	34	27	26	1.91
310138--310181	20	2.2	20	95	0	79	11	29	34	25	1.91
310168--310194	14	1.9	14	100	0	54	7	29	40	22	1.81
311114--311153	14	2.9	14	96	0	71	30	25	45	0	1.54
311875--312186	168	1.8	169	81	8	384	45	9	6	38	1.62
312124--312171	19	2.5	19	75	0	51	52	4	0	43	1.20
318802--318861	28	2.1	28	84	0	75	35	26	3	35	1.73
320204--320282	39	2.0	39	100	0	158	40	7	7	44	1.61
321827--321886	31	2.0	30	83	3	75	51	5	11	31	1.60
322616--322727	55	2.0	55	98	0	215	21	17	26	33	1.96
328192--328230	19	2.1	19	95	0	69	20	38	15	25	1.92
328213--328322	47	2.4	47	86	4	152	30	24	15	29	1.96
335758--335801	21	2.1	21	86	0	61	9	36	15	38	1.80
336104--336140	18	2.0	19	94	5	67	13	0	27	59	1.35
336108--336151	18	2.5	18	85	3	63	18	0	27	54	1.44
336825--336863	19	2.1	19	95	0	69	20	38	15	25	1.92
336762--336970	65	3.2	64	83	8	212	29	26	17	26	1.97
336811--336973	65	2.5	65	85	3	222	30	26	15	26	1.96
338336--338425	23	3.9	23	82	0	108	23	21	23	32	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
338854--338908	25	2.2	25	81	15	62	30	1	9	58	1.40
348074--348115	22	1.9	22	90	9	68	14	11	4	69	1.34
348437--348479	9	4.7	9	82	5	59	83	11	4	0	0.78
348433--348479	20	2.4	20	85	3	69	82	12	4	0	0.80
352777--352818	22	1.9	22	90	9	68	14	11	4	69	1.34
353280--353375	23	4.3	22	80	11	90	23	19	25	31	1.98
361751--361863	43	2.7	43	81	1	138	27	17	15	38	1.91
361825--361896	33	2.2	33	82	2	83	34	15	15	34	1.89
362596--362675	2	41.0	2	92	5	137	48	0	1	50	1.08
365124--366177	105	10.0	105	96	0	1894	22	17	25	34	1.96
367632--367656	2	12.5	2	100	0	50	48	0	0	52	1.00
369615--370659	104	10.0	105	95	2	1829	21	17	25	34	1.96
369615--370659	207	5.0	209	94	2	1834	21	17	25	34	1.96
381615--381640	2	13.0	2	100	0	52	50	0	0	50	1.00
383619--383674	24	2.3	24	100	0	112	28	17	16	37	1.91
385051--385146	31	3.1	31	84	3	122	28	7	9	55	1.58
387404--387449	18	2.6	18	96	0	83	32	23	13	30	1.93
393516--393561	21	2.2	21	84	7	58	28	2	2	67	1.14
393512--393562	22	2.4	21	78	15	59	31	1	1	64	1.15
393791--393850	23	2.6	23	83	0	66	20	21	25	33	1.97
400132--400167	18	2.1	17	89	5	54	38	13	19	27	1.90
407083--407142	30	2.0	31	90	3	95	48	1	1	48	1.21
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
407126--407160	18	1.9	18	88	0	52	60	0	0	40	0.97
407124--407177	23	2.3	23	87	6	74	57	0	1	40	1.09
407078--407207	31	4.3	31	75	15	110	49	0	1	48	1.16
407256--407324	19	3.6	18	71	21	52	47	1	2	47	1.25
407312--407362	23	2.3	22	86	3	66	54	0	0	45	0.99
416958--417026	30	2.2	30	82	15	86	36	2	17	43	1.64
416968--417027	29	2.0	30	93	6	104	33	3	16	46	1.64
417106--417204	21	4.8	20	81	10	119	23	34	19	23	1.97
418368--418426	30	2.0	30	87	9	86	35	6	15	42	1.73
418506--418617	21	5.4	21	91	1	172	21	36	20	21	1.95
418638--418710	20	3.7	20	100	0	146	20	24	21	32	1.97
418823--418862	20	1.9	22	90	10	66	37	40	10	12	1.77
419674--419716	21	2.0	21	90	0	68	23	37	18	20	1.94
419780--419853	20	3.7	20	77	10	78	20	27	22	29	1.98
421533--421593	2	30.5	2	100	0	122	49	0	0	50	1.00
422769--422825	16	3.7	15	69	6	51	33	0	3	63	1.12
422750--422829	32	2.7	30	80	12	85	33	0	5	61	1.18
422757--422859	34	3.2	31	80	5	89	34	0	3	61	1.15
422997--423035	17	2.3	17	81	0	51	35	0	2	61	1.10
424580--424627	21	2.3	21	85	0	60	25	39	12	22	1.89
424635--424724	21	4.3	22	91	5	125	18	33	26	21	1.96
425238--425315	39	2.0	39	80	12	88	58	2	1	37	1.20
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
425238--425334	33	2.9	34	82	3	124	55	3	3	38	1.31
425236--425341	34	3.2	33	80	8	124	54	3	2	38	1.33
425486--425921	128	3.4	129	92	1	743	30	21	25	22	1.99
425999--426039	8	5.2	8	82	5	57	36	29	0	34	1.58
431282--431306	8	3.1	8	100	0	50	24	16	12	48	1.79
444244--444299	25	2.2	25	83	0	67	25	12	32	30	1.92
448546--448589	22	2.0	22	81	0	52	40	2	20	36	1.65
449204--449256	26	2.1	26	86	10	74	30	20	18	30	1.97
456066--456101	18	2.0	18	88	0	54	30	8	30	30	1.87
456336--456398	32	2.0	31	90	9	101	44	20	6	28	1.76

Tables:   1   2   3   4