genome.fa.s1279.2.7.7.80.10.50.1000.3.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: VEPZ01001279.1 Hibiscus syriacus cultivar Beakdansim tig00002511_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  6984689

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   

This is table  3  of  29  ( 3433 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)
495176--495220	20	2.3	19	85	11	63	35	8	11	44	1.71
497891--497935	20	2.3	19	85	11	63	35	8	11	44	1.71
504304--504584	54	5.2	54	87	0	402	28	20	19	30	1.97
504304--504553	107	2.3	107	89	1	376	29	21	18	31	1.96
504695--504918	81	2.7	81	88	2	324	40	12	20	26	1.88
518077--518123	19	2.4	20	82	7	60	34	31	17	17	1.92
518309--518377	22	3.1	22	89	0	111	15	44	18	20	1.86
518670--518730	20	3.1	20	90	4	97	47	19	21	11	1.81
520960--520985	13	2.0	13	100	0	52	38	23	0	38	1.55
521812--521864	18	2.9	18	83	5	70	26	20	26	26	1.99
521847--522009	66	2.5	62	84	7	184	30	15	20	32	1.94
522021--522059	20	2.0	20	94	0	69	23	15	30	30	1.95
521894--522059	66	2.5	67	79	10	182	27	16	21	34	1.94
522345--522424	42	1.9	42	97	0	151	46	8	5	40	1.57
523110--523149	21	2.0	20	86	13	57	42	15	32	10	1.79
530235--530271	19	1.9	19	94	0	65	24	16	29	29	1.96
530298--530336	20	2.0	20	89	0	60	23	17	28	30	1.97
531660--531922	7	35.1	7	74	18	203	41	1	3	54	1.25
531653--531890	2	128.5	2	67	28	120	42	1	3	52	1.29
531711--531922	43	5.3	41	77	18	175	40	0	2	56	1.16
531715--531922	71	2.9	72	78	16	229	40	0	2	56	1.16
531653--531922	55	5.1	51	75	17	196	41	1	3	54	1.26
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
531746--531932	19	9.9	19	70	18	97	39	1	2	57	1.18
531751--531943	7	26.3	7	73	15	72	38	1	1	58	1.17
534184--534227	12	3.8	11	79	8	52	18	4	2	75	1.09
538228--538385	64	2.5	64	83	6	178	28	16	23	31	1.96
538292--538434	64	2.2	64	82	8	175	27	15	24	32	1.95
544783--544822	21	1.9	21	89	0	62	30	10	7	52	1.62
545697--545854	64	2.5	64	80	2	156	29	16	23	30	1.96
549805--549904	42	2.4	41	77	3	101	31	27	19	23	1.98
551154--551204	22	2.5	20	87	6	66	25	17	31	25	1.97
551154--551212	20	2.8	22	84	7	77	25	18	30	25	1.98
553808--553958	23	6.7	23	83	11	165	29	15	27	27	1.96
553809--553958	45	3.4	45	83	9	168	29	16	26	28	1.96
557677--557716	21	1.9	21	94	0	71	40	25	0	35	1.56
559547--559602	20	2.7	21	77	8	60	26	16	28	28	1.97
560396--560729	2	178.5	2	73	23	286	43	1	2	52	1.24
560396--560732	7	48.4	7	78	19	295	43	1	2	52	1.24
560405--560729	78	4.3	76	79	15	338	43	1	2	52	1.23
560729--560762	4	8.5	4	86	0	50	20	2	2	73	1.09
560736--560767	16	2.0	16	93	0	55	21	6	0	71	1.07
564291--564430	38	3.4	39	82	11	149	45	4	8	42	1.54
564418--564444	2	13.5	2	100	0	54	51	0	0	48	1.00
573135--573201	24	2.8	24	81	0	89	19	25	22	32	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
573119--573208	24	3.8	24	73	12	78	21	23	23	32	1.98
579699--579788	3	31.3	3	74	8	62	54	4	1	40	1.28
579711--579807	14	6.9	14	78	5	81	53	4	1	41	1.27
579725--579788	20	3.0	22	78	19	80	57	4	1	35	1.29
579733--579801	19	3.7	18	81	12	70	56	4	1	37	1.28
580021--580848	55	15.3	55	88	3	1144	28	28	14	28	1.95
580021--580848	108	7.6	109	87	3	1129	28	28	14	28	1.95
583320--583723	195	2.1	195	95	0	727	29	20	17	32	1.96
583729--583761	2	17.0	2	93	6	59	48	0	0	51	1.00
585784--585918	72	1.9	72	87	3	200	26	25	11	35	1.91
587678--587760	39	2.1	39	100	0	166	43	10	8	37	1.70
590858--590983	3	43.3	3	77	6	98	55	3	0	41	1.16
590888--590990	34	3.1	34	81	6	113	57	3	0	38	1.17
590858--591002	12	12.2	12	77	10	102	54	3	0	42	1.17
594546--594592	23	2.0	24	83	4	60	21	25	23	29	1.99
595150--595188	20	1.9	20	84	5	51	30	7	15	46	1.74
595183--595222	21	1.9	21	100	0	80	25	22	27	25	2.00
595248--595288	21	2.0	21	90	0	64	29	21	21	26	1.99
602167--602303	68	2.0	68	100	0	274	40	7	20	32	1.80
608298--608828	201	2.6	200	83	2	636	31	18	20	29	1.97
609334--609382	2	25.0	2	88	12	75	51	0	2	46	1.12
609399--609436	20	1.9	19	94	5	67	36	0	15	47	1.46
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
609424--609542	36	3.1	38	74	12	127	45	5	8	40	1.59
609530--609572	2	21.5	2	100	0	86	51	0	0	48	1.00
614152--614237	22	4.0	21	72	18	63	44	4	3	47	1.40
614212--614375	90	1.8	90	93	2	285	45	6	10	37	1.63
620995--621170	89	2.0	90	90	1	282	46	6	10	37	1.63
639177--639422	45	5.5	45	86	0	339	39	16	18	25	1.91
639279--639353	25	3.2	25	61	24	63	38	18	21	21	1.93
649580--649644	33	2.0	33	100	0	130	24	18	27	29	1.98
649703--649741	20	2.0	20	89	0	60	20	10	17	51	1.74
649743--649898	45	3.5	45	85	5	228	41	5	20	32	1.76
651872--651899	13	2.2	13	100	0	56	28	7	28	35	1.84
652612--652669	30	1.9	30	96	0	107	48	12	13	25	1.77
657351--657540	40	4.5	42	69	17	135	24	16	34	24	1.95
657373--657534	46	3.7	45	75	14	153	23	17	34	24	1.96
658022--658132	43	2.6	43	83	0	141	20	18	31	29	1.96
658646--658720	32	2.3	32	86	6	107	32	24	17	26	1.97
659765--659807	22	2.0	22	81	9	52	4	16	2	76	1.05
662244--662476	118	2.0	116	92	1	385	51	17	10	20	1.73
663041--663107	29	2.3	30	80	12	84	55	13	10	20	1.67
663801--663888	3	29.3	3	83	4	88	57	1	1	39	1.13
663800--663839	20	2.0	20	100	0	80	70	0	0	30	0.88
663804--663837	17	2.0	17	100	0	68	70	0	0	29	0.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
670146--670196	3	16.7	3	84	11	68	37	1	0	60	1.08
671613--671639	11	2.5	11	100	0	54	25	7	0	66	1.17
674446--674501	27	2.1	27	90	6	87	25	10	26	37	1.88
675339--675391	25	2.1	25	82	6	63	50	7	1	39	1.41
675885--675941	23	2.6	22	86	5	62	35	3	0	61	1.13
676630--676656	13	2.1	13	100	0	54	22	25	14	37	1.93
683464--683515	22	2.4	22	87	6	79	57	1	5	34	1.33
685214--685288	35	2.2	33	83	6	89	42	22	9	25	1.83
685231--685535	101	3.0	103	85	6	413	40	22	11	25	1.88
686585--686671	42	2.0	44	84	4	115	36	20	16	26	1.93
689220--689277	15	3.9	15	90	0	80	32	15	24	27	1.95
692191--692270	39	2.1	39	90	0	124	16	32	15	36	1.89
692745--692800	21	2.7	20	74	17	60	50	8	17	23	1.74
693353--693588	59	4.0	59	91	1	375	31	6	17	44	1.74
693353--693588	117	2.0	118	92	0	393	31	6	17	44	1.74
695033--695084	2	25.5	2	96	3	95	50	0	1	48	1.12
695835--696035	94	2.1	95	87	0	287	38	12	23	24	1.90
696378--696770	54	7.3	54	90	0	588	33	12	17	37	1.87
700080--700354	142	2.0	140	90	1	433	37	21	10	29	1.88
705129--705171	3	14.0	3	81	13	52	30	2	0	67	1.03
706495--706577	28	2.8	29	74	7	87	24	10	9	55	1.64
706559--706656	30	3.3	30	74	8	76	18	14	11	56	1.67
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
708194--708222	14	2.1	14	100	0	58	55	20	6	17	1.65
710598--710647	24	2.1	24	85	7	66	26	2	12	60	1.43
711954--711998	21	2.1	21	83	0	54	28	17	24	28	1.97
713195--713244	24	2.1	24	85	7	66	60	12	2	26	1.43
716535--716577	20	2.2	20	87	4	61	67	0	13	18	1.23
716513--716588	26	3.0	26	71	17	70	65	0	15	18	1.27
720290--720325	9	3.9	9	85	7	54	86	8	5	0	0.72
728204--728246	20	2.1	21	87	8	63	18	13	0	67	1.23
731533--731582	24	2.1	24	85	7	66	26	2	12	60	1.43
735973--736049	35	2.2	35	97	0	145	25	28	12	32	1.93

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29