genome.fa.s9618.2.7.7.80.10.50.1000.3.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: VEPZ01009618.1 Hibiscus syriacus cultivar Beakdansim tig00117007_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1135495

Tables:   1   2   3   4   5   

This is table  3  of  5  ( 596 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)
388548--388677	13	9.2	13	72	20	84	41	3	6	47	1.48
388662--388715	21	2.7	20	77	11	56	48	1	1	48	1.23
388864--388916	21	2.6	21	82	8	56	45	5	1	47	1.37
388923--389023	2	52.0	2	75	9	75	41	0	3	53	1.26
389621--389654	15	2.2	15	89	5	50	17	23	23	35	1.95
395520--395569	20	2.5	20	96	0	91	20	26	6	48	1.72
407386--407437	5	10.2	5	80	12	61	5	21	53	19	1.65
407379--407416	17	2.2	17	100	0	76	10	23	47	18	1.79
407352--407389	7	5.6	7	90	6	51	23	23	31	21	1.98
409690--409728	20	2.0	20	89	0	60	28	17	17	35	1.94
409798--409854	21	2.8	21	89	2	80	21	19	29	29	1.97
412411--412469	21	2.8	21	94	0	100	28	20	18	32	1.96
412584--412641	21	2.8	21	84	2	82	22	17	27	32	1.96
413698--413786	16	5.7	16	75	15	87	47	28	12	12	1.77
413693--413799	32	3.5	31	79	12	112	48	27	13	11	1.75
415494--415668	77	2.3	77	100	0	350	38	12	9	39	1.75
425136--425173	15	2.5	15	87	8	51	57	10	26	5	1.53
431959--432100	76	1.9	75	86	4	205	40	13	25	20	1.89
433445--433481	2	18.5	2	100	0	74	51	0	0	48	1.00
437135--437177	18	2.4	18	92	0	68	20	6	0	72	1.08
437206--437282	18	4.2	17	75	18	50	32	5	0	62	1.17
437233--437274	19	2.2	19	87	8	59	30	0	0	69	0.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
437206--437272	15	4.5	15	75	15	68	31	4	0	64	1.14
442715--442754	10	3.6	12	77	19	50	10	5	7	77	1.11
442762--442807	9	4.8	9	82	12	56	19	4	0	76	0.96
442761--442807	14	3.3	14	80	14	51	21	4	0	74	0.99
442776--442809	11	3.3	11	92	8	54	17	0	0	82	0.67
442762--442808	5	9.6	5	77	13	53	19	4	0	76	0.95
442968--442996	15	1.9	15	100	0	58	58	13	20	6	1.58
444624--444771	76	2.0	76	85	6	203	29	1	12	56	1.44
445025--445059	18	1.9	18	88	0	52	17	11	0	71	1.14
445093--445142	25	2.0	26	88	4	75	32	2	0	66	1.03
445106--445143	19	2.0	19	85	10	51	31	0	0	68	0.90
454687--454728	22	1.9	22	90	9	68	50	0	2	47	1.14
455517--455612	48	2.0	48	87	0	138	32	9	15	42	1.79
459018--459126	55	2.0	55	96	0	200	10	20	11	57	1.62
467796--467853	20	2.9	20	79	5	64	24	20	25	29	1.99
468240--468273	2	17.0	2	100	0	68	50	0	0	50	1.00
471976--472008	2	16.5	2	93	0	57	51	45	0	3	1.16
472886--472920	18	2.0	18	88	5	54	22	34	0	42	1.54
475004--475029	2	13.0	2	100	0	52	50	0	50	0	1.00
475748--475806	24	2.5	23	83	2	73	28	3	16	50	1.61
475748--475838	23	3.9	23	75	8	76	29	6	13	50	1.66
489621--489691	2	36.5	2	94	5	128	49	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
491172--491207	2	18.0	2	100	0	72	50	0	0	50	1.00
491220--491379	85	1.9	84	84	10	218	32	17	18	31	1.94
492034--492085	27	2.0	25	85	7	68	36	3	11	48	1.58
495866--496243	188	2.0	188	100	0	756	37	13	17	30	1.89
496844--496895	27	2.0	25	85	7	68	36	3	11	48	1.58
497584--498001	209	2.0	209	100	0	836	32	13	11	42	1.80
499285--499355	34	2.1	34	84	2	90	25	25	14	35	1.93
499709--499765	17	3.5	17	72	16	57	19	17	38	24	1.93
501210--501296	44	2.0	44	93	0	147	39	19	9	32	1.83
502107--502149	18	2.4	18	100	0	86	25	0	0	74	0.82
502198--502249	17	3.1	17	76	13	63	21	5	0	73	1.04
502189--502249	22	2.7	22	82	12	72	21	4	0	73	1.01
502174--502251	27	2.8	28	81	14	83	20	6	0	73	1.05
502198--502249	12	4.6	11	83	11	70	21	5	0	73	1.04
502185--502250	17	3.8	17	74	20	57	21	6	0	72	1.05
502290--502357	16	3.9	16	70	17	55	14	7	2	75	1.14
502333--502442	35	3.1	35	79	10	116	19	6	1	72	1.15
502423--502456	14	2.4	14	90	0	50	26	11	0	61	1.30
503489--503534	19	2.4	19	82	7	58	50	0	6	43	1.28
508676--508719	18	2.5	18	96	3	81	18	6	18	56	1.62
519990--520028	21	1.9	19	85	10	51	30	12	7	48	1.69
520202--520360	59	2.7	57	75	21	141	51	0	1	46	1.13
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
520520--520700	20	9.1	20	86	0	263	38	23	17	20	1.93
520827--520873	22	2.1	22	92	0	76	25	42	10	21	1.85
524761--524800	14	2.9	14	80	0	53	30	0	17	52	1.45
524710--524850	66	2.2	66	83	8	177	31	1	17	50	1.54
524960--525005	20	2.3	20	92	0	74	23	21	15	39	1.92
525293--525328	18	2.0	18	94	0	63	16	2	25	55	1.55
527596--527649	24	2.2	24	93	0	90	40	20	18	20	1.91
527596--527663	24	2.8	24	84	0	73	36	20	17	25	1.94
528569--528643	20	3.8	20	78	1	89	21	14	25	38	1.91
528569--528787	21	10.8	21	75	9	80	28	14	24	31	1.95
528635--528726	42	2.2	42	90	1	141	36	15	21	26	1.93
528730--528783	20	2.7	20	77	11	65	25	12	31	29	1.93
529272--529339	36	1.9	35	96	3	127	30	11	7	50	1.66
529262--529340	15	4.9	15	69	19	61	30	12	7	49	1.68
531568--531633	33	2.0	33	93	0	114	37	27	12	22	1.90
532895--532949	3	18.7	3	92	3	67	34	7	0	58	1.26
533455--533484	11	2.8	11	95	5	53	73	6	20	0	1.05
538485--538670	93	2.0	92	83	9	236	31	16	12	39	1.86
539802--539882	42	2.0	42	81	16	98	39	16	13	30	1.87
541240--541374	37	3.6	37	75	7	137	32	18	11	37	1.86
541240--541430	36	5.2	36	76	6	150	33	19	9	37	1.84
541258--541409	76	2.0	76	96	0	277	33	19	11	36	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
541771--541835	20	3.3	20	64	12	53	43	12	23	21	1.86
541876--542233	140	2.6	139	85	2	486	39	15	19	25	1.91
542370--542404	3	12.0	3	93	6	63	34	0	0	65	0.93
542367--542404	14	2.6	14	95	4	67	34	0	0	65	0.93
543367--543420	2	27.0	2	100	0	108	50	0	0	50	1.00
545206--545294	29	3.1	29	86	3	135	23	23	8	43	1.82
545263--545411	81	1.8	81	82	0	190	29	22	11	36	1.89
545768--546048	47	6.1	47	76	14	216	22	21	12	43	1.86
545773--545985	67	3.2	67	88	1	302	23	23	11	42	1.86
545820--545940	20	5.7	20	78	12	125	20	28	11	39	1.87
545949--545987	20	2.0	20	84	0	51	23	20	12	43	1.86
550534--550644	28	3.9	28	81	2	114	24	23	9	42	1.84
550615--550856	80	3.0	80	86	4	326	28	21	12	36	1.90
551198--551243	20	2.2	20	80	3	56	26	26	8	39	1.85
551201--551512	47	6.9	47	79	9	362	22	21	12	44	1.85
551330--551405	35	2.2	35	88	4	109	23	18	11	46	1.82
551236--551499	129	2.0	129	89	2	397	21	19	12	45	1.84
551283--551452	82	2.1	82	86	4	236	22	19	12	45	1.84
551476--551575	20	4.7	20	79	16	101	22	25	12	41	1.88
551377--551626	114	2.2	114	90	1	385	22	21	12	43	1.86
551431--551575	67	2.2	67	93	0	245	22	23	12	42	1.87
551496--551684	47	4.0	47	90	0	297	20	21	14	43	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
554358--554493	72	1.9	74	90	3	222	41	5	2	49	1.42
559139--559172	17	2.1	16	88	5	50	14	8	0	76	1.01
565523--565565	20	2.1	21	87	8	63	18	13	0	67	1.23
565522--565571	20	2.5	20	75	15	59	18	18	0	64	1.30
569398--569431	17	2.1	16	88	5	50	14	8	0	76	1.01
576611--576653	20	2.2	20	100	0	86	32	23	20	23	1.98
581384--581435	27	2.0	27	88	3	79	23	19	28	28	1.98
589727--589799	3	23.3	3	83	8	92	61	0	2	35	1.10
589727--589799	19	3.9	18	85	8	92	61	0	2	35	1.10
589981--590280	130	2.3	128	78	8	288	24	17	31	27	1.97

Tables:   1   2   3   4   5