genome.fa.s1981.2.7.7.80.10.50.1000.3.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: VEPZ01001981.1 Hibiscus syriacus cultivar Beakdansim tig00004035_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1059896

Tables:   1   2   3   4   5   

This is table  3  of  5  ( 528 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)
418856--419056	64	3.1	63	79	11	226	34	6	2	55	1.40
419128--419177	21	2.6	21	81	12	63	36	6	4	54	1.44
419195--419294	11	9.7	11	70	11	52	47	3	3	47	1.33
419186--419250	26	2.5	26	82	9	80	49	4	1	44	1.32
419118--419250	2	66.0	2	65	18	53	43	5	3	48	1.41
419389--419679	2	147.0	2	67	18	155	47	2	3	46	1.32
419382--419543	41	3.9	40	72	14	130	47	1	3	47	1.28
419434--419541	9	11.7	9	67	23	55	47	1	1	49	1.23
419421--419452	13	2.5	13	100	0	64	40	0	6	53	1.26
419443--419674	63	3.7	63	78	13	198	47	2	3	46	1.31
419516--419674	11	15.4	10	72	15	58	48	1	4	45	1.33
435112--435170	19	3.2	19	72	13	52	28	3	0	67	1.06
435773--435857	21	4.2	20	87	3	116	58	9	5	25	1.52
435773--435857	41	2.1	41	86	4	118	58	9	5	25	1.52
436352--436468	29	4.0	29	80	4	126	30	3	15	50	1.60
436352--436439	31	2.9	31	84	3	126	29	2	14	53	1.53
436352--436468	60	2.0	60	84	3	155	30	3	15	50	1.60
436357--436487	29	4.4	29	78	9	95	32	3	14	49	1.61
443113--443177	21	3.2	20	91	6	96	61	10	6	21	1.50
443693--443867	60	3.0	59	84	5	194	32	4	16	47	1.65
443698--443886	29	6.4	29	83	9	186	32	4	15	47	1.65
454678--454764	40	2.2	40	97	0	165	35	12	18	33	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
456496--456570	35	2.1	35	90	0	114	33	0	21	45	1.52
459102--459130	3	9.7	3	100	0	58	31	0	0	68	0.89
460465--460518	2	26.5	2	84	3	63	51	5	0	42	1.25
462695--462762	30	2.3	30	89	0	109	8	11	64	14	1.49
462695--462762	15	4.5	15	81	0	73	8	11	64	14	1.49
464719--464759	22	1.9	22	85	5	57	12	12	12	63	1.53
467866--467963	3	30.7	3	81	10	79	58	0	39	2	1.10
468338--468381	21	2.1	21	95	0	79	43	4	0	52	1.22
474293--474602	55	5.6	55	94	1	525	36	18	11	33	1.86
481221--481637	55	7.6	55	88	2	581	34	17	11	35	1.87
481221--481637	218	1.9	219	87	3	617	34	17	11	35	1.87
485826--485939	60	1.9	59	82	7	140	34	13	15	36	1.87
510229--510582	159	2.2	158	87	2	496	44	5	19	29	1.74
511966--512414	90	5.0	90	88	1	621	38	15	22	23	1.92
512666--512718	17	2.9	19	86	10	67	52	39	5	1	1.36
512764--512797	17	2.1	16	88	5	50	41	32	5	20	1.76
522253--522295	15	2.9	15	79	10	52	4	37	4	53	1.43
524606--524969	90	4.1	91	85	5	485	36	17	21	24	1.95
524606--524969	181	2.0	177	88	3	541	36	17	21	24	1.95
528544--528598	20	2.7	21	88	5	85	30	18	21	29	1.97
531799--531857	27	2.1	28	96	3	111	37	18	16	27	1.93
534185--534333	75	2.0	75	94	0	262	36	14	18	30	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
546002--546047	14	3.1	14	87	6	65	15	13	17	54	1.71
546302--546357	10	5.4	10	78	14	51	10	3	19	66	1.37
546311--546398	10	8.1	10	72	16	59	9	10	19	61	1.54
546345--546375	14	2.2	14	94	0	53	3	12	25	58	1.50
546358--546397	20	2.0	20	95	0	71	5	17	22	55	1.61
551803--551839	18	2.0	19	89	5	58	24	2	5	67	1.25
551862--551893	16	2.0	16	93	0	55	31	3	0	65	1.08
562414--562557	75	1.9	76	85	7	204	58	11	20	10	1.61
562522--562573	5	10.0	5	78	15	52	82	1	15	0	0.75
562525--562568	13	3.3	13	78	15	54	84	2	13	0	0.73
562524--562573	21	2.4	20	87	9	73	84	2	14	0	0.72
563643--564010	99	3.6	99	83	4	362	35	23	18	22	1.96
563732--564067	106	3.2	104	84	4	387	35	23	17	24	1.95
565647--565685	19	2.0	20	90	5	62	23	2	5	69	1.21
565712--565745	3	11.0	3	87	6	50	32	2	0	64	1.08
565818--565842	2	12.5	2	100	0	50	48	0	0	52	1.00
571240--571289	25	2.0	25	96	0	91	38	12	22	28	1.89
580702--580734	15	2.1	16	88	5	50	42	3	21	33	1.68
585268--585322	3	18.7	3	88	3	85	29	1	0	69	0.99
585616--585675	31	2.0	30	87	9	86	48	1	0	50	1.11
586154--586198	2	23.5	2	86	8	67	46	0	0	53	1.00
586184--586225	21	2.0	21	86	4	59	28	0	2	69	1.01
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
595230--595269	21	1.9	21	89	0	62	25	40	25	10	1.86
597732--597937	73	2.8	74	80	5	227	24	31	23	21	1.99
600050--600167	7	14.4	7	74	25	83	76	2	17	3	1.04
600039--600091	26	2.0	26	96	0	97	69	9	15	5	1.33
600076--600167	8	11.2	8	76	16	66	78	0	18	3	0.89
600079--600167	17	5.4	16	80	6	99	77	0	19	3	0.91
600080--600167	42	2.1	42	91	2	142	78	0	18	3	0.89
605103--605157	22	2.5	22	90	0	92	32	16	12	38	1.86
605920--606330	76	5.4	76	97	0	768	23	20	21	34	1.97
606485--606544	11	5.6	11	86	9	72	41	0	0	58	0.98
606487--606533	5	9.0	5	90	9	60	38	0	0	61	0.96
606485--606533	3	17.3	3	80	19	61	38	0	0	61	0.96
607808--607854	3	16.0	3	82	12	62	29	2	0	68	1.02
607808--607852	19	2.4	19	92	7	74	28	2	0	68	1.01
607784--607854	31	2.4	30	82	13	85	29	4	1	64	1.20
607852--607891	2	20.0	2	100	0	80	50	0	0	50	1.00
607960--608177	120	1.8	119	81	3	269	36	9	9	44	1.69
608153--608212	31	2.0	32	83	9	81	46	1	0	51	1.10
609476--609521	23	2.0	24	86	4	67	63	13	0	23	1.30
615610--615655	22	2.1	22	91	0	74	19	23	30	26	1.98
615698--615746	25	2.0	25	87	0	71	26	12	26	34	1.92
621503--621595	45	2.0	47	83	4	118	18	20	24	36	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
622209--622278	25	2.8	25	95	0	122	20	14	27	38	1.91
622272--622298	10	2.7	10	100	0	54	18	18	11	51	1.74
631886--632006	59	2.1	59	96	0	224	34	23	17	23	1.96
634619--634652	15	2.3	15	89	0	50	38	11	29	20	1.88
635104--635142	15	2.6	15	100	0	78	28	0	17	53	1.44
635428--635486	23	2.6	23	71	10	57	20	27	25	27	1.99
639549--639582	15	2.3	15	94	0	59	35	14	29	20	1.93
640159--640260	23	4.4	23	69	11	75	21	19	24	34	1.96
642742--642878	59	2.3	59	87	2	195	29	18	21	29	1.97
646891--646927	18	1.9	19	89	10	58	81	8	10	0	0.89
646901--646934	16	2.1	17	89	10	54	82	5	8	2	0.93
646891--646936	19	2.3	20	82	14	60	80	6	10	2	0.98
646965--647022	28	2.2	26	81	12	64	65	3	20	10	1.38
647138--647186	16	2.9	16	84	6	53	16	22	0	61	1.34
651237--651285	16	2.9	16	84	6	53	16	22	0	61	1.34
660320--660356	18	2.1	18	89	0	56	43	8	21	27	1.80
660326--660364	18	2.2	18	86	4	53	41	10	20	28	1.85
670956--671021	32	2.1	32	85	2	89	19	9	30	40	1.83
671585--671630	18	2.6	18	86	3	67	28	28	8	34	1.87
673871--673944	35	2.1	35	100	0	148	29	13	10	45	1.77
675954--676042	37	2.4	37	90	1	133	12	12	37	38	1.81
676611--676675	17	3.8	17	85	4	85	27	26	9	36	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
676625--676678	18	3.1	18	82	12	67	29	27	7	35	1.84
679145--679393	36	6.9	36	92	0	390	17	18	20	43	1.88
679146--679393	108	2.3	108	95	0	433	17	18	20	43	1.88
688745--688821	36	2.1	36	92	7	129	25	16	18	38	1.92
703847--703874	12	2.3	12	100	0	56	46	0	0	53	1.00
704426--704486	18	3.4	18	90	0	95	21	6	1	70	1.19
707222--707253	9	3.6	9	95	0	55	12	40	9	37	1.75
707333--707377	15	3.0	15	81	12	56	24	33	4	37	1.76
709153--709208	24	2.3	24	100	0	112	28	17	16	37	1.91
709431--709496	30	2.2	30	86	0	87	13	30	21	34	1.92

Tables:   1   2   3   4   5