genome.fa.s7727.2.7.7.80.10.50.1000.4.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: VEPZ01007727.1 Hibiscus syriacus cultivar Beakdansim tig00109978_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  640948

Tables:   1   2   3   4   

This is table  4  of  4  ( 475 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)
464306--464332	13	2.1	13	100	0	54	40	29	7	22	1.81
470452--470512	32	1.9	32	89	0	95	16	4	29	49	1.66
470401--470518	32	3.3	35	75	18	93	13	8	36	41	1.75
471842--471893	22	2.4	22	93	0	86	9	23	34	32	1.87
472222--472275	18	3.1	18	83	2	65	35	24	7	33	1.83
485180--485231	29	1.9	27	85	14	72	65	5	25	3	1.32
486926--486985	29	2.1	29	96	0	111	25	28	28	18	1.98
487076--487157	32	2.6	32	100	0	164	26	26	36	9	1.88
487144--487238	29	3.3	29	95	0	163	13	30	32	23	1.93
487554--487592	16	2.3	18	86	8	55	38	0	5	56	1.22
487944--487983	8	5.4	8	82	14	50	25	0	12	62	1.30
490139--490171	17	1.9	17	93	0	57	45	12	6	36	1.66
490381--490407	14	1.9	14	100	0	54	44	7	3	44	1.49
490363--490447	37	2.4	37	80	7	95	50	4	2	42	1.36
490379--490729	26	14.2	26	74	11	254	45	9	1	44	1.45
490386--490715	98	3.3	97	78	11	298	45	9	1	43	1.46
490395--490787	124	3.2	124	94	1	668	44	9	1	44	1.45
490556--490787	98	2.4	95	81	8	227	43	9	2	44	1.49
493620--493680	26	2.4	24	76	15	59	42	1	6	49	1.38
494049--494075	14	1.9	14	100	0	54	74	14	3	7	1.18
494046--494078	17	1.9	17	88	11	50	72	15	3	9	1.21
494474--494522	21	2.3	21	82	3	62	51	18	0	30	1.47
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
494957--495024	35	1.9	35	96	0	127	25	16	29	29	1.96
495051--495135	29	2.6	36	73	25	112	21	36	23	18	1.95
495070--495140	29	2.4	29	97	0	133	19	33	25	21	1.97
495096--495152	15	3.9	15	71	28	59	19	36	24	19	1.94
495369--495453	29	2.9	30	96	3	156	17	28	38	15	1.90
505893--505934	22	1.9	22	85	0	57	26	4	21	47	1.70
515868--515908	20	2.0	20	90	0	64	34	4	12	48	1.62
515877--515908	11	3.1	11	82	17	50	34	0	12	53	1.39
518023--518051	14	2.1	14	93	6	51	86	0	0	13	0.58
518141--518168	14	2.0	14	100	0	56	14	28	14	42	1.84
518697--519057	194	1.8	197	85	4	507	37	11	20	30	1.88
519036--519085	24	2.1	24	92	0	82	60	4	14	22	1.51
519064--519129	32	2.0	34	88	8	100	57	3	15	24	1.52
519880--520161	122	2.3	122	83	2	325	28	13	23	35	1.92
520202--520604	138	2.9	139	86	2	542	22	15	28	33	1.95
520759--520997	103	2.3	103	82	7	283	37	12	15	35	1.84
523057--523124	26	2.7	25	82	6	84	55	5	5	32	1.48
528462--528502	23	1.9	21	85	14	57	70	4	9	14	1.30
528476--528518	19	2.3	19	80	8	52	65	4	13	16	1.43
529005--529074	34	2.1	32	86	5	95	21	30	15	32	1.94
529289--529328	21	1.9	22	90	10	66	12	10	40	37	1.77
529430--529484	21	2.7	21	85	2	67	25	23	29	21	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
529538--529580	22	1.9	23	90	4	70	20	20	32	25	1.97
529681--529740	30	2.0	30	90	6	95	41	16	6	35	1.75
531013--531060	19	2.5	20	82	3	62	29	12	6	52	1.63
531887--531956	34	2.1	32	86	5	95	22	31	14	31	1.94
532171--532210	21	1.9	22	90	10	66	12	10	40	37	1.77
532323--532376	21	2.7	20	85	8	65	25	24	27	22	2.00
532529--532587	28	2.0	31	87	9	88	42	15	6	35	1.73
532799--532890	34	2.8	33	87	11	127	56	3	13	27	1.52
537079--537118	21	1.9	21	100	0	80	35	0	35	30	1.58
551018--551070	19	2.8	19	94	0	88	22	20	30	26	1.98
552904--552986	36	2.3	37	89	4	125	27	20	10	40	1.86
552906--553008	36	2.6	42	73	19	121	28	22	11	37	1.89
555742--556183	36	11.9	37	82	12	518	46	3	5	43	1.44
555834--556183	74	4.9	73	86	9	497	47	3	5	44	1.43
556040--556168	65	2.0	64	93	3	224	48	3	4	43	1.42
556076--556128	27	2.0	27	88	7	81	47	5	3	43	1.45
556002--556183	101	1.8	101	91	2	303	48	3	5	42	1.42
558024--558049	12	2.2	12	100	0	52	34	7	34	23	1.83
560189--560238	26	1.9	26	84	8	66	48	2	2	48	1.24
560246--561048	329	2.4	330	88	6	1168	43	6	5	45	1.51
561031--561055	13	1.9	13	100	0	50	64	0	0	36	0.94
561861--561895	10	3.5	10	85	14	54	34	25	0	40	1.56
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
562027--562249	111	2.0	112	93	0	385	33	8	12	46	1.71
564574--564610	12	3.2	12	77	14	51	32	5	51	10	1.60
565001--565045	19	2.4	19	96	0	81	28	22	26	22	1.99
568916--568943	14	2.0	14	100	0	56	35	21	0	42	1.53
569257--569322	28	2.4	28	100	0	132	36	10	0	53	1.36
570000--570060	27	2.3	27	75	16	63	39	13	0	47	1.42
575624--575733	34	3.2	34	76	23	99	50	0	0	48	1.13
575668--575847	29	6.2	29	70	23	121	50	1	1	47	1.18
575711--575852	30	4.8	31	72	18	106	50	1	1	47	1.18
575826--575894	23	2.8	24	78	10	68	49	0	4	46	1.21
576075--576164	42	2.1	42	85	4	119	55	16	6	21	1.64
580138--580176	2	19.5	2	100	0	78	48	0	0	51	1.00
581008--581167	73	2.2	75	88	4	236	42	9	14	33	1.78
581177--581233	23	2.5	23	91	0	96	31	17	15	35	1.92
581209--581679	75	6.3	75	75	8	345	39	12	13	34	1.82
581435--581529	23	4.1	23	90	0	127	34	13	14	36	1.86
581009--581505	272	1.8	270	87	1	744	40	11	13	34	1.81
581293--581689	219	1.8	219	89	1	634	38	13	14	34	1.84
581654--581704	23	2.2	23	85	0	66	37	17	11	33	1.86
581458--582064	196	3.1	195	87	0	874	37	13	14	34	1.85
581714--581875	75	2.2	75	82	0	198	38	11	14	36	1.81
581850--581922	23	3.2	23	82	0	92	35	15	15	34	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
581904--582064	75	2.1	75	83	0	196	37	13	13	34	1.85
582527--583030	107	4.6	106	77	10	390	32	13	13	40	1.83
585369--585423	26	2.1	26	83	10	67	49	5	7	38	1.54
586225--586268	10	4.7	9	83	10	52	13	29	31	25	1.94
586225--586275	19	2.6	19	80	17	52	15	31	29	23	1.95
586224--586282	29	2.0	29	80	6	66	20	30	27	22	1.98
586327--586370	7	6.3	7	89	0	61	18	27	31	22	1.97
589078--589132	18	3.0	18	86	2	65	67	0	23	9	1.19
592245--592280	15	2.4	15	95	0	63	50	5	30	13	1.65
593652--593697	24	1.9	24	95	0	83	39	13	28	19	1.89
596212--596259	20	2.3	22	85	7	64	35	8	6	50	1.58
596484--596542	12	4.8	12	74	15	57	55	3	1	38	1.26
611690--611744	22	2.5	21	82	8	65	43	18	18	20	1.88
612222--612262	3	13.7	3	100	0	82	65	0	0	34	0.93
613793--613826	17	2.0	17	88	0	50	52	32	0	14	1.42
613861--613967	51	2.1	51	96	0	196	28	16	15	38	1.90
617146--617185	21	1.9	21	85	10	55	35	10	2	52	1.48
619478--619522	22	2.0	22	91	0	72	24	24	20	31	1.98
621026--621075	15	3.2	16	72	11	59	48	14	6	32	1.67
621010--621088	30	2.6	30	86	7	115	48	10	5	36	1.59
634561--634590	3	10.0	3	100	0	60	33	0	0	66	0.92
634581--634652	25	2.9	26	75	6	69	18	9	0	72	1.11
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
634575--634694	41	2.9	40	77	13	125	18	8	0	72	1.14
634630--634694	22	3.3	18	73	21	58	18	6	1	73	1.11
634621--634717	44	2.4	41	82	16	121	16	7	2	74	1.14
634561--634694	9	15.8	8	70	22	55	20	7	0	71	1.14
634581--634718	41	3.4	40	74	19	124	17	9	1	71	1.19

Tables:   1   2   3   4

The End!