genome.fa.s3421.2.7.7.80.10.50.1000.3.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: VEPZ01003421.1 Hibiscus syriacus cultivar Beakdansim tig00007204_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  882701

Tables:   1   2   3   4   5   

This is table  3  of  5  ( 526 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)
547408--547583	40	4.2	40	72	11	138	21	15	27	35	1.93
547480--547562	41	2.0	40	83	2	103	22	15	26	34	1.94
547341--547589	126	2.0	127	83	1	320	22	15	26	35	1.94
547619--547747	61	2.1	61	91	2	206	27	12	23	36	1.91
548052--548242	102	1.9	102	85	4	269	36	12	15	35	1.85
548199--548451	64	3.8	66	77	11	210	37	15	17	30	1.90
551846--551886	20	2.1	19	86	9	55	39	17	17	26	1.91
556319--556366	20	2.4	20	96	0	87	10	10	8	70	1.33
562007--562054	20	2.4	20	79	10	53	14	12	6	66	1.42
562757--562823	3	21.3	3	85	11	82	62	0	0	37	0.95
562757--562823	20	3.2	22	83	10	95	62	0	0	37	0.95
562764--562833	33	2.2	33	84	7	90	61	1	0	37	1.05
572331--572381	11	4.5	11	76	11	50	76	3	3	15	1.08
572945--572972	11	2.5	11	100	0	56	0	53	35	10	1.36
573882--574242	135	2.7	134	84	4	433	25	23	15	35	1.94
574265--574518	39	6.5	39	85	5	327	38	13	17	29	1.88
574254--574518	117	2.3	117	86	7	378	38	13	17	30	1.88
574498--574612	33	3.3	33	67	15	95	40	13	13	32	1.83
574528--574646	40	3.2	39	67	16	106	42	10	15	31	1.81
574504--574677	73	2.4	73	94	0	294	39	11	16	33	1.84
576875--576915	12	3.6	12	80	12	50	48	19	12	19	1.80
576875--576935	22	2.8	22	87	0	77	44	18	18	19	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
576959--577005	21	2.2	22	88	3	69	23	27	23	25	2.00
577836--577906	31	2.3	31	87	2	108	30	23	5	39	1.78
577928--577995	29	2.3	29	100	0	136	39	14	10	35	1.80
581144--581178	13	2.7	13	100	0	70	34	8	34	22	1.85
585315--585371	23	2.5	22	83	8	62	21	24	29	24	1.99
589155--589196	21	2.0	21	86	9	59	30	7	7	54	1.54
591901--591929	14	2.1	14	100	0	58	17	13	48	20	1.81
592960--593004	19	2.4	19	82	10	56	77	2	4	15	1.02
594605--594653	20	2.5	20	86	3	64	30	12	4	53	1.57
600333--600363	15	2.1	15	100	0	62	41	0	19	38	1.51
601876--601941	33	2.0	33	100	0	132	45	27	6	21	1.75
605702--605726	11	2.3	11	100	0	50	24	0	32	44	1.54
608077--608278	78	2.6	78	88	1	280	31	21	26	20	1.98
608082--608278	39	5.1	39	76	3	182	31	21	26	20	1.98
609200--609224	13	1.9	13	100	0	50	68	8	0	24	1.16
610689--610740	3	17.3	3	85	0	68	59	0	3	36	1.16
610822--610901	16	5.0	16	78	3	72	5	15	33	46	1.67
612798--612866	34	2.0	34	100	0	138	40	8	20	30	1.82
614975--615023	6	8.8	6	80	17	61	48	0	0	51	1.00
614975--615026	16	3.3	16	89	2	79	48	0	0	51	1.00
614977--615019	22	2.0	22	90	9	70	51	0	0	48	1.00
623701--623786	38	2.3	37	91	2	145	36	33	5	24	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
626310--626357	23	2.1	23	88	0	69	35	12	18	33	1.89
626784--626870	39	2.2	39	95	0	156	17	13	20	48	1.81
627128--627164	18	2.1	18	89	0	56	51	10	5	32	1.60
627412--627462	25	2.0	25	92	0	84	39	19	7	33	1.81
627740--627802	23	2.7	23	90	0	90	38	17	6	38	1.75
628165--628227	23	2.7	23	90	0	90	38	19	6	36	1.77
630798--631137	181	1.9	183	90	2	551	32	16	14	35	1.90
632606--632692	3	29.0	3	77	0	84	24	34	5	35	1.79
632606--632707	18	5.7	18	79	0	87	22	34	6	36	1.81
632614--632704	42	2.2	42	91	0	146	21	35	7	35	1.83
639752--639817	10	6.8	10	76	11	66	16	22	31	28	1.96
639752--639819	19	3.5	19	88	6	84	16	25	30	27	1.96
639813--639870	17	3.4	17	97	0	107	17	43	24	15	1.87
639860--639890	7	4.4	7	100	0	62	16	29	29	25	1.96
641521--641635	24	4.8	24	88	4	160	40	20	15	23	1.90
641497--641652	48	3.2	48	80	7	138	44	19	12	23	1.85
641501--641652	72	2.1	71	78	8	164	44	19	13	23	1.86
644087--644127	17	2.4	17	87	0	55	29	29	26	14	1.95
646501--646659	64	2.5	65	84	7	191	34	18	20	26	1.96
647155--647189	18	1.9	18	88	11	54	54	5	17	22	1.64
647862--648174	147	2.1	148	93	3	533	26	17	21	34	1.96
648142--648186	23	2.0	23	90	0	72	22	26	26	24	2.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
651483--651641	64	2.5	65	84	7	191	34	18	20	26	1.96
652844--653148	149	2.0	149	95	1	549	27	17	20	35	1.95
653126--653170	23	2.0	23	90	0	72	22	26	26	24	2.00
654423--654537	24	4.8	24	88	4	151	39	19	16	25	1.92
659160--659280	24	5.0	24	84	4	109	41	19	13	25	1.88
659160--659285	48	2.6	48	84	2	146	41	20	13	24	1.88
659177--659285	24	4.5	24	86	4	139	40	20	15	23	1.91
663757--663797	15	2.7	15	84	3	55	7	9	4	78	1.10
667320--667357	18	2.1	18	90	0	58	31	36	10	21	1.87
673755--673790	18	2.0	18	88	0	54	33	38	11	16	1.84
678273--678376	54	1.9	54	94	0	181	34	9	11	44	1.73
678632--678691	31	1.9	31	83	12	79	41	5	1	51	1.33
679710--679768	21	2.8	21	81	0	82	10	28	38	22	1.86
683658--683709	19	2.6	21	87	6	72	48	7	11	32	1.68
684516--684552	18	2.1	18	90	5	58	40	5	18	35	1.74
687296--687345	19	2.6	20	84	12	61	64	2	12	22	1.37
692576--692632	1	57.0	1	75	0	51	0	12	0	87	0.54
692570--692629	13	4.8	13	89	4	72	0	15	0	85	0.61
692885--692934	19	2.6	20	84	12	61	64	2	12	22	1.37
702916--702963	9	5.0	9	76	14	51	14	27	20	37	1.92
702915--702963	20	2.5	20	77	9	57	16	26	20	36	1.93
702908--702965	30	1.9	30	96	0	107	17	27	20	34	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
704057--704095	10	3.9	10	86	0	60	48	0	10	41	1.37
703958--711433	146	53.9	136	83	11	7900	53	6	8	32	1.56
703958--705308	136	10.0	130	81	11	813	53	6	7	31	1.55
704319--704351	10	3.3	10	95	0	57	48	0	18	33	1.48
704455--704503	10	4.9	10	89	0	80	48	0	14	36	1.44
704455--704503	20	2.5	20	100	0	98	48	0	14	36	1.44
704600--704649	10	5.0	10	87	0	73	48	2	14	36	1.55
704600--704649	20	2.5	20	96	0	91	48	2	14	36	1.55
704746--704793	10	4.8	10	84	0	69	47	0	14	37	1.44
704746--704793	20	2.4	20	96	0	87	47	0	14	37	1.44
705144--705176	10	3.3	10	95	0	57	48	0	18	33	1.48
705279--705327	10	4.9	10	89	0	80	48	0	14	36	1.44
705279--705327	20	2.5	20	100	0	98	48	0	14	36	1.44
705423--705461	10	3.9	10	93	0	69	48	0	12	38	1.42
705599--705858	123	2.1	126	95	2	472	53	7	8	30	1.58
705038--705729	135	4.9	148	86	9	882	53	6	8	32	1.56
705787--705820	8	4.1	8	85	7	50	73	17	0	8	1.08
705830--705878	10	4.9	10	80	9	64	44	0	14	40	1.45
705830--705878	20	2.5	20	93	0	80	44	0	14	40	1.45
705976--706024	10	4.9	10	84	0	71	48	0	12	38	1.41
705976--706024	20	2.5	20	93	0	89	48	0	12	38	1.41
706121--706169	10	4.9	10	84	0	71	46	0	14	38	1.44
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
706121--706169	20	2.5	20	96	0	89	46	0	14	38	1.44
706266--706310	5	9.0	5	80	0	54	48	0	11	40	1.39
706266--706314	10	4.9	10	100	0	98	48	0	10	40	1.37
706411--706459	10	4.9	10	89	0	80	48	0	14	36	1.44
706411--706459	20	2.5	20	100	0	98	48	0	14	36	1.44
706557--706605	10	4.9	10	84	0	71	46	0	14	38	1.44
706557--706605	20	2.5	20	96	0	89	46	0	14	38	1.44
706702--706751	10	5.0	10	87	0	73	48	0	14	38	1.44
706702--706751	20	2.5	20	96	0	91	48	0	14	38	1.44
706722--707941	126	9.2	123	72	17	503	53	6	8	31	1.56

Tables:   1   2   3   4   5