genome.fa.s7959.2.7.7.80.10.50.1000.3.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: VEPZ01007959.1 Hibiscus syriacus cultivar Beakdansim tig00110386_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1044826

Tables:   1   2   3   4   5   

This is table  3  of  5  ( 509 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)
470092--470125	12	2.8	12	95	0	59	55	26	0	17	1.42
470252--470297	24	1.9	24	90	0	74	23	19	21	34	1.96
470251--470304	24	2.2	24	83	0	72	22	16	20	40	1.91
473078--473112	18	2.0	17	88	5	52	57	20	2	20	1.54
473358--473422	20	3.2	20	88	0	103	20	18	24	36	1.94
474907--474998	21	4.4	21	86	5	123	25	18	35	20	1.95
475410--475459	21	2.4	21	86	0	73	34	34	14	18	1.90
475574--475668	42	2.3	42	88	0	136	20	16	35	27	1.94
477165--477203	20	2.0	20	94	0	69	53	20	10	15	1.70
477229--477292	20	3.2	20	88	2	94	14	17	20	48	1.81
477229--477304	20	3.8	20	82	1	73	17	15	18	48	1.81
483228--483265	7	5.4	7	90	0	58	18	26	26	28	1.98
495216--495248	17	2.0	17	88	5	50	66	12	0	21	1.23
495699--495742	23	1.9	23	100	0	88	20	27	18	34	1.96
495694--495725	16	2.0	16	93	0	55	21	25	18	34	1.96
496621--496671	27	2.0	27	92	7	88	62	1	0	35	1.06
499710--499753	22	2.0	22	100	0	88	31	22	22	22	1.98
499711--499777	22	3.0	22	86	0	80	31	22	19	26	1.98
503510--503556	2	23.5	2	100	0	94	51	0	0	48	1.00
509365--509458	39	2.4	39	92	1	154	24	5	10	59	1.51
511127--511245	60	2.0	60	85	3	159	26	22	24	26	2.00
511462--511516	25	2.2	25	96	0	101	38	12	10	38	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
526245--526275	2	15.5	2	100	0	62	0	48	0	51	1.00
526275--526308	2	17.0	2	100	0	68	50	0	0	50	1.00
526308--526353	2	23.5	2	95	4	85	50	0	50	0	1.00
527272--527395	61	2.0	61	89	3	187	35	12	11	40	1.80
534935--535017	31	2.7	31	85	7	89	27	7	7	57	1.52
534946--535019	31	2.4	31	88	6	107	31	4	6	58	1.43
535097--535164	30	2.3	31	80	10	88	29	11	10	48	1.73
547193--547237	2	23.0	2	95	4	83	48	0	0	51	1.00
548231--548308	13	5.4	14	73	17	61	55	2	0	42	1.13
548231--548308	12	7.0	10	76	23	52	55	2	0	42	1.13
548245--548300	2	31.0	2	76	20	61	53	1	0	44	1.11
548839--548919	20	4.1	19	84	9	99	34	19	17	28	1.95
548819--548919	40	2.5	40	82	3	123	36	20	16	25	1.94
553412--553558	29	5.1	29	83	8	176	29	4	19	46	1.68
553411--553558	57	2.6	57	83	8	210	30	4	18	46	1.68
557479--557567	44	2.0	47	84	6	121	30	19	12	38	1.88
558570--558649	27	3.1	26	78	8	76	51	6	1	41	1.35
558863--558889	2	13.5	2	100	0	54	48	0	0	51	1.00
559918--559986	2	37.5	2	80	16	87	52	1	0	46	1.09
564614--564698	43	2.0	43	90	0	134	56	20	3	20	1.56
579225--579261	12	2.9	14	80	19	53	27	8	5	59	1.48
579463--579490	13	2.2	13	100	0	56	39	21	7	32	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
588563--588626	21	3.1	20	86	4	83	31	23	17	28	1.97
591541--591597	28	2.0	29	82	3	71	61	5	5	28	1.39
591576--591644	3	22.3	3	77	11	59	59	0	2	37	1.12
591581--591646	26	2.7	26	83	6	84	56	0	4	39	1.20
592519--592744	43	5.3	43	91	0	317	27	23	23	26	2.00
592544--592770	43	5.3	42	89	1	267	25	22	23	28	1.99
592519--592770	86	2.9	86	88	0	335	26	22	23	27	1.99
592544--592787	129	1.9	129	83	3	321	26	22	23	27	1.99
592940--592998	21	2.8	21	84	0	73	55	20	5	18	1.61
599451--599790	41	8.3	41	87	1	389	32	20	18	27	1.96
600689--600788	50	2.0	50	90	0	155	38	15	25	22	1.92
601767--601818	2	26.0	2	96	0	95	50	1	0	48	1.12
603351--603387	16	2.3	16	100	0	74	56	10	13	18	1.66
606903--606952	21	2.7	17	78	21	64	34	10	10	46	1.71
606914--606955	21	2.0	21	100	0	84	38	9	9	42	1.70
612434--612460	3	9.0	3	100	0	54	33	0	0	66	0.92
618981--619034	23	2.3	23	96	0	99	16	9	33	40	1.80
623792--624039	55	4.5	54	89	5	372	35	16	18	30	1.92
625055--625089	3	11.7	3	100	0	70	65	0	34	0	0.93
625439--625478	20	2.0	20	90	5	62	30	0	27	42	1.56
628402--628516	60	1.9	60	83	3	151	39	13	9	37	1.78
630040--630080	17	2.4	18	80	12	50	70	0	4	24	1.06
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
630082--630119	2	19.0	2	100	0	76	50	0	0	50	1.00
633235--633277	21	2.0	21	86	0	59	20	16	25	37	1.93
637142--637172	15	2.1	15	100	0	62	6	32	29	32	1.83
638563--638602	20	2.0	20	90	0	62	57	17	12	12	1.65
638600--638651	20	2.6	20	100	0	104	30	21	19	28	1.97
639014--639079	22	3.0	22	86	0	96	19	16	39	24	1.92
639275--639368	20	4.7	20	84	2	134	21	21	20	37	1.95
639277--639368	41	2.3	40	88	1	130	20	21	20	36	1.95
639255--639368	61	1.9	60	90	1	183	22	21	21	35	1.96
639358--639410	21	2.5	21	81	0	61	33	16	26	22	1.96
639714--639785	2	36.0	2	90	5	110	47	1	2	48	1.25
640126--640263	69	2.0	68	95	1	249	32	5	10	51	1.59
648992--649077	19	4.6	19	79	11	97	50	20	8	20	1.74
648994--649078	39	2.3	37	91	6	136	50	20	8	21	1.73
649187--649249	31	2.0	31	87	0	90	39	14	9	36	1.78
653189--653275	34	2.6	34	83	5	99	26	22	5	44	1.75
653409--653556	74	2.0	73	84	6	192	20	19	7	52	1.70
658198--658252	2	27.5	2	100	0	110	49	0	0	50	1.00
658786--659114	55	6.0	55	83	2	295	35	17	16	31	1.92
658845--659113	55	4.9	55	85	3	319	36	16	15	31	1.90
664587--664770	54	3.4	54	83	3	183	38	19	10	31	1.86
664616--664799	54	3.4	54	81	4	210	36	19	13	30	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
666998--667038	8	5.2	8	85	2	57	0	14	0	85	0.60
674162--674262	30	3.5	30	75	12	95	47	6	17	27	1.73
680282--680312	14	2.1	15	94	5	55	32	16	6	45	1.72
682095--682194	5	18.4	5	71	22	53	24	1	4	71	1.10
682062--682161	52	1.9	54	84	10	136	24	4	2	70	1.15
682062--682184	51	2.4	50	81	10	126	25	3	2	69	1.16
683443--683467	4	6.2	4	100	0	50	24	0	0	76	0.80
692919--692951	17	1.9	17	88	11	50	78	3	18	0	0.87
695745--695786	18	2.5	17	85	11	59	30	4	0	64	1.14
695775--695810	18	1.9	19	88	5	56	19	0	2	77	0.88
700493--700539	19	2.6	18	80	16	60	72	0	4	23	1.02
701826--701878	16	3.2	16	79	15	63	33	3	7	54	1.46
701829--701880	18	3.1	17	78	15	63	34	3	7	53	1.48
701807--701934	53	2.5	52	78	7	129	32	3	10	53	1.50
706597--706621	2	12.5	2	100	0	50	52	0	0	48	1.00
706792--706843	13	4.0	13	84	0	59	34	17	23	25	1.96
706661--706820	84	1.9	85	88	1	241	30	18	20	30	1.96
706792--706843	26	2.0	26	84	0	68	34	17	23	25	1.96
711767--711822	24	2.3	24	93	0	94	32	30	14	23	1.94
728245--728331	43	2.0	43	97	0	165	31	9	11	48	1.71
728916--728954	19	2.1	19	85	0	51	20	33	25	20	1.97
743950--743990	16	2.7	15	82	17	50	80	0	7	12	0.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
754230--754270	19	2.2	20	86	8	59	75	0	2	21	0.92
762350--762398	24	2.0	24	96	0	89	34	30	14	20	1.92
770340--770491	79	1.9	79	89	2	234	33	22	14	29	1.94
770796--770858	18	3.6	17	75	14	58	36	3	4	55	1.37
770796--770855	16	3.6	16	78	15	59	36	3	5	55	1.38
770884--770945	15	4.3	15	71	24	53	40	4	3	51	1.39
770966--771038	2	39.0	2	75	13	57	39	0	2	57	1.13
772222--780507	4	2094.2	4	84	3	9877	26	4	24	44	1.72
784252--784284	14	2.4	14	94	0	57	30	21	3	45	1.67
787219--787285	2	33.5	2	96	0	125	49	0	1	49	1.10

Tables:   1   2   3   4   5