genome.fa.s9637.2.7.7.80.10.50.1000.3.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: VEPZ01009637.1 Hibiscus syriacus cultivar Beakdansim tig00117046_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  867493

Tables:   1   2   3   4   

This is table  3  of  4  ( 477 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)
441542--441711	85	2.0	85	87	1	241	34	20	20	25	1.96
445769--446104	41	8.2	40	69	19	153	34	18	16	30	1.93
446613--446670	29	2.0	29	93	0	98	36	8	1	53	1.42
446641--446704	22	2.8	24	77	15	73	35	7	0	56	1.28
446649--446704	22	2.5	23	82	5	78	37	7	0	55	1.27
446641--446727	26	3.4	26	78	15	92	36	10	0	52	1.36
446620--446716	50	1.9	52	83	8	128	39	9	1	50	1.41
450798--450843	18	2.5	18	86	10	58	47	8	13	30	1.72
452339--452444	3	34.7	3	81	9	117	62	0	0	35	1.08
459913--459946	2	17.0	2	93	0	59	47	0	2	50	1.16
463431--463491	22	2.8	21	82	9	68	34	21	21	22	1.97
464036--464107	21	3.4	21	92	0	117	27	22	25	25	2.00
466009--466048	16	2.5	16	91	0	62	32	2	22	42	1.67
466025--466058	16	2.1	16	88	0	50	35	0	17	47	1.48
470742--470769	6	4.7	6	100	0	56	32	17	14	35	1.90
478805--478876	3	24.0	3	80	5	65	43	0	0	56	0.99
478821--478901	35	2.2	36	81	14	87	45	0	0	54	0.99
479965--479998	2	17.0	2	100	0	68	50	0	0	50	1.00
481525--481607	23	3.7	22	78	9	71	24	3	0	72	1.01
481553--481608	16	3.4	16	83	14	62	25	1	0	73	0.93
483929--483969	7	5.9	7	78	21	50	14	17	9	58	1.62
483999--484041	22	2.0	22	86	9	61	18	13	4	62	1.48
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
490527--490630	54	1.9	54	88	0	154	38	16	21	24	1.93
491565--491887	167	1.9	165	91	2	531	34	13	13	38	1.84
491886--492116	73	3.2	73	94	0	399	29	20	12	36	1.90
491894--492125	36	6.3	36	69	3	149	31	18	12	36	1.89
492181--492512	45	7.3	45	91	3	531	24	23	19	32	1.98
492181--492512	138	2.4	134	89	4	538	24	23	19	32	1.98
492163--492512	183	1.9	183	97	0	664	23	23	20	32	1.98
492454--492886	76	5.7	76	98	0	821	22	19	23	34	1.97
493034--493135	3	34.3	3	82	5	64	46	0	0	53	1.00
493034--493135	17	6.4	16	72	17	61	46	0	0	53	1.00
493045--493120	23	3.4	23	92	3	120	48	0	0	51	1.00
493045--493150	20	5.1	22	74	20	88	46	0	0	53	1.00
494218--494264	2	23.5	2	100	0	94	48	0	0	51	1.00
497337--497388	20	2.6	20	100	0	104	23	19	23	34	1.96
498897--498934	2	19.0	2	100	0	76	50	0	0	50	1.00
500028--500128	47	2.2	47	83	1	132	34	31	20	12	1.91
500783--500852	12	5.8	12	86	0	77	30	8	18	42	1.80
507981--508035	26	2.1	26	93	6	94	69	0	7	23	1.14
509065--509112	19	2.5	19	96	0	87	10	35	2	52	1.48
509949--510046	44	2.2	44	87	3	135	51	11	23	14	1.74
511289--511342	21	2.6	21	91	2	83	31	27	14	25	1.95
511375--511413	20	2.0	20	100	0	78	33	25	10	30	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
511395--511541	79	1.9	78	84	5	197	34	23	13	28	1.93
516530--516561	15	2.1	16	94	5	57	6	25	18	50	1.70
519781--519938	78	2.0	78	90	0	244	25	19	9	45	1.80
524646--524690	5	9.0	5	100	0	90	20	0	0	80	0.72
539431--539461	11	2.8	11	100	0	62	67	0	0	32	0.91
539804--539909	44	2.4	44	90	0	167	27	23	10	38	1.87
540576--540611	16	2.3	15	90	4	54	80	0	0	19	0.71
554303--554433	37	3.4	36	84	12	172	45	1	6	45	1.39
554415--554447	2	16.5	2	100	0	66	51	0	0	48	1.00
554342--554519	89	2.0	88	87	7	254	46	1	6	46	1.35
554380--554484	52	2.1	50	90	3	165	46	0	5	46	1.33
554431--554519	37	2.4	37	90	1	133	48	1	5	44	1.33
554522--554563	14	3.0	14	89	6	59	33	0	2	64	1.07
554507--554564	20	3.1	19	78	12	57	37	0	1	60	1.07
554533--554612	5	16.4	5	76	17	71	20	1	0	78	0.81
554555--554612	24	2.5	23	86	10	82	13	1	0	84	0.70
554523--554609	30	2.8	30	79	10	88	21	1	1	75	0.93
554543--554612	35	2.0	36	86	8	99	17	1	0	81	0.77
555771--555804	15	2.2	16	94	5	61	11	2	0	85	0.71
555755--555805	9	6.0	8	82	17	59	11	7	0	80	0.90
555868--555909	16	2.6	16	78	17	50	26	4	0	69	1.08
564712--564780	33	2.0	35	86	5	97	23	17	2	56	1.54
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
569813--570052	43	5.9	41	78	11	196	43	2	6	47	1.43
569813--570027	81	2.6	80	84	7	254	43	1	6	47	1.41
569813--570049	39	5.9	39	81	9	226	43	2	6	47	1.41
570094--570132	15	2.6	15	91	0	60	28	2	0	69	1.02
570115--570171	5	11.6	5	87	10	73	15	3	0	80	0.84
570094--570152	30	2.0	30	86	6	84	25	1	0	72	0.93
570115--570171	9	5.8	10	84	10	73	15	3	0	80	0.84
570115--570171	19	2.9	19	86	5	69	15	3	0	80	0.84
571298--571367	23	2.9	23	73	16	61	18	7	0	74	1.04
575354--575386	9	3.8	9	84	8	50	78	0	21	0	0.75
587387--587422	7	5.1	7	100	0	72	16	13	0	69	1.19
596969--597016	24	2.0	24	84	8	62	18	6	16	58	1.59
597825--597871	23	2.0	23	95	0	85	31	8	38	21	1.83
601864--601925	32	1.9	33	86	3	90	19	12	12	54	1.70
604013--604059	22	2.3	21	79	13	55	38	4	8	48	1.53
606120--606272	32	4.8	32	75	7	123	58	6	13	21	1.58
610265--610307	21	2.0	21	81	0	50	30	30	25	13	1.94
610265--610436	67	2.6	67	87	3	231	27	27	26	17	1.98
610400--610437	20	1.9	20	88	0	58	23	34	31	10	1.89
610803--610861	30	2.0	30	93	0	100	38	3	23	33	1.72
611075--611142	22	3.0	22	95	2	118	19	25	27	27	1.98
617179--617350	67	2.6	67	86	3	222	27	27	26	18	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
617314--617351	20	1.9	20	88	0	58	23	34	31	10	1.89
617714--617772	30	2.0	30	93	0	100	38	3	23	33	1.72
617986--618053	22	3.0	22	97	2	127	19	26	27	26	1.99
629543--629589	3	16.0	3	95	4	87	0	34	0	65	0.93
630204--630234	2	15.5	2	100	0	62	48	0	0	51	1.00
635656--635700	18	2.5	18	89	7	65	26	4	0	68	1.08
635647--635699	22	2.4	22	76	20	56	26	3	0	69	1.05
644812--644906	49	1.9	49	89	0	145	14	33	30	21	1.93
645000--645045	20	2.3	20	96	0	83	28	43	0	28	1.55
645135--645175	18	2.3	18	91	4	66	29	4	0	65	1.13
645237--645569	111	3.0	111	96	0	621	36	8	11	44	1.70
647428--647480	9	5.9	9	84	0	52	32	18	35	13	1.90
647428--647484	18	3.2	18	87	0	87	31	19	35	14	1.91
647431--647474	15	2.9	15	86	0	52	31	18	36	13	1.90
650904--651033	51	2.5	50	86	2	152	21	27	34	16	1.94
651478--651713	114	2.1	117	87	4	347	41	5	9	42	1.61
651813--651860	21	2.2	23	85	7	64	54	0	12	33	1.38
654305--654331	13	2.1	13	100	0	54	37	14	25	22	1.93
657088--657162	20	3.8	20	98	0	141	26	29	8	36	1.85
658590--658645	21	2.7	21	82	0	76	23	23	21	32	1.98
658606--658700	21	4.6	21	74	19	83	25	23	21	30	1.99
658652--658735	21	4.2	21	76	14	79	28	23	21	26	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
659365--659400	10	3.3	11	92	7	56	0	16	55	27	1.42
659362--659396	5	6.6	5	96	3	52	0	20	54	25	1.45
659463--659516	21	2.6	21	90	0	90	25	24	22	27	2.00
660877--660914	13	2.9	13	92	0	67	10	60	21	7	1.54
660950--661027	41	1.9	41	94	0	138	16	44	20	17	1.86
674402--674435	16	2.1	16	88	0	50	35	14	17	32	1.91
674593--674621	15	1.9	15	100	0	58	62	3	0	34	1.12
677955--678079	42	3.0	42	92	0	205	37	6	20	36	1.78
678208--678266	28	2.1	28	90	0	91	59	10	11	18	1.60
680112--680152	2	21.0	2	95	5	75	51	0	0	48	1.00

Tables:   1   2   3   4