genome.fa.s9000.2.7.7.80.10.50.1000.3.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: VEPZ01009000.1 Hibiscus syriacus cultivar Beakdansim tig00112382_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1742898

Tables:   1   2   3   4   5   6   7   8   9   

This is table  3  of  9  ( 1003 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)
553289--553499	67	3.1	67	75	13	200	40	14	17	27	1.88
553754--553814	20	3.2	20	68	25	60	44	19	18	18	1.87
553888--553990	36	2.8	37	78	8	129	44	9	18	27	1.81
554037--554490	90	5.0	89	88	2	611	35	20	17	26	1.95
554037--554490	180	2.5	180	90	0	694	35	20	17	26	1.95
561053--561084	15	2.1	15	94	0	55	59	0	18	21	1.38
563534--563606	14	5.4	13	69	8	56	2	15	2	79	0.96
564312--564363	19	2.6	21	90	6	81	46	5	13	34	1.67
567807--567832	13	2.0	13	100	0	52	0	23	0	76	0.78
568575--568626	19	2.6	21	90	6	81	46	5	13	34	1.67
570170--570234	30	2.2	30	88	0	94	27	35	26	10	1.90
570220--570262	19	2.3	19	91	0	68	25	20	34	18	1.96
571183--571215	17	1.9	18	88	11	52	45	0	12	42	1.41
571168--571215	15	2.9	17	85	11	57	45	0	14	39	1.45
571641--571688	23	2.1	22	88	3	69	77	0	0	22	0.78
572667--572724	17	3.5	17	72	9	57	65	5	3	25	1.29
573784--573827	23	1.9	23	95	0	79	29	6	45	18	1.75
574063--574122	3	19.7	3	86	3	84	61	0	0	38	0.96
574248--574566	78	4.1	78	95	1	534	35	19	20	25	1.95
574530--574603	36	2.0	37	89	2	114	45	16	13	24	1.83
574376--574894	192	2.8	185	91	5	851	36	18	18	26	1.94
574565--574763	78	2.5	77	91	3	335	38	18	17	25	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
574724--574794	31	2.3	31	95	0	124	43	21	12	22	1.86
574646--574872	108	2.1	109	93	0	384	37	18	17	25	1.93
575536--575658	22	5.6	22	89	2	176	38	11	15	34	1.83
576892--577140	75	3.4	72	79	8	220	28	22	17	32	1.96
579828--579857	8	3.8	8	90	0	51	0	13	0	86	0.57
585278--585357	11	7.2	11	69	23	51	65	1	2	31	1.14
585276--585343	12	5.9	12	70	19	56	67	0	2	29	1.05
586073--586113	18	2.2	19	86	8	57	43	7	2	46	1.44
586952--586997	23	2.0	23	91	0	74	23	13	47	15	1.80
587230--587282	3	17.7	3	80	7	63	60	0	0	39	0.97
587230--587281	15	3.5	15	84	7	70	59	0	0	40	0.97
589512--589570	31	1.9	30	86	3	82	40	1	1	55	1.20
592436--592460	13	1.9	13	100	0	50	24	0	4	72	1.02
601564--601773	65	3.3	63	79	11	212	30	24	19	25	1.98
601564--601799	129	1.8	130	81	8	302	30	24	19	25	1.98
604007--604078	2	35.5	2	76	18	60	45	0	5	48	1.25
604007--604078	34	2.2	33	92	7	119	45	0	5	48	1.25
604034--604147	23	4.9	24	69	20	89	47	0	8	43	1.34
604090--604160	23	3.1	22	81	15	83	52	0	7	40	1.29
604117--604194	39	2.0	40	87	5	113	52	1	6	39	1.35
604147--604203	26	2.1	27	81	9	64	54	3	7	35	1.45
604680--604727	21	2.3	21	85	0	69	14	41	27	16	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
605462--605487	8	3.2	8	100	0	52	38	0	11	50	1.39
607612--607656	21	2.0	24	83	12	60	46	13	20	20	1.83
611932--612020	42	2.1	42	83	4	108	31	13	20	34	1.91
613201--613554	67	5.3	66	85	1	404	27	21	17	33	1.96
613287--613350	29	2.2	29	81	8	69	25	17	23	34	1.96
613207--613555	134	2.6	134	87	1	477	26	21	17	33	1.96
613779--613949	88	1.9	88	83	2	218	28	20	19	31	1.97
613556--613861	135	2.3	135	87	2	461	32	18	19	30	1.96
613644--614254	223	2.7	222	86	1	817	29	19	19	32	1.96
613867--614113	135	1.8	136	82	6	322	27	19	20	32	1.97
614005--614173	88	1.9	88	87	0	248	27	21	19	31	1.97
614601--614625	11	2.3	11	100	0	50	8	0	8	84	0.79
614629--614695	23	3.2	22	80	19	81	47	0	7	44	1.31
614630--614695	19	3.3	19	76	19	71	48	0	7	43	1.31
614629--614714	42	2.0	42	82	12	106	50	0	6	43	1.29
618028--618062	8	4.4	8	96	0	61	80	0	20	0	0.72
618461--618776	53	6.0	53	85	2	377	38	5	31	24	1.77
619020--619205	98	1.9	100	87	4	279	32	5	25	36	1.79
619518--619576	25	2.3	26	97	2	111	49	0	3	47	1.18
620952--621120	26	6.5	26	100	0	338	38	14	11	35	1.82
621268--621319	19	2.7	20	79	8	63	19	0	7	73	1.07
626482--626518	16	2.4	16	90	4	58	37	16	37	8	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
631376--631427	20	2.6	20	75	6	52	30	15	17	36	1.91
644156--644277	3	40.7	3	98	0	235	0	32	0	66	0.98
650460--650526	33	2.0	33	100	0	134	43	5	17	32	1.74
653166--653208	21	2.0	21	86	0	59	37	18	16	27	1.92
657072--657133	20	3.0	20	77	13	72	30	20	12	35	1.91
662837--662887	19	2.7	19	75	19	54	47	0	1	50	1.12
663256--663362	16	6.6	16	72	9	83	54	26	2	16	1.56
663436--663492	20	3.1	18	77	10	62	57	0	0	42	0.98
663434--663489	18	3.1	19	77	15	64	57	0	0	42	0.99
663607--663662	18	3.1	18	72	10	51	58	0	1	39	1.08
668856--668906	19	2.6	20	90	3	77	43	23	17	15	1.88
668856--669133	20	13.6	20	75	8	139	39	19	21	20	1.93
668981--669131	40	3.7	40	81	8	187	36	16	23	23	1.94
669124--669163	20	2.0	20	90	0	62	52	17	17	12	1.74
668917--669153	103	2.3	103	79	3	298	38	18	22	20	1.93
669241--669285	6	7.5	6	100	0	90	33	51	15	0	1.44
669976--670103	6	21.5	6	99	0	249	0	16	50	32	1.45
670181--670224	20	2.2	20	91	0	70	11	18	15	54	1.70
670211--670424	20	10.4	20	83	4	194	20	24	18	36	1.95
670213--670424	40	5.2	40	84	5	226	20	24	17	36	1.94
670246--670424	83	2.2	83	90	0	277	21	25	17	35	1.95
670438--670491	20	2.7	20	94	0	90	11	18	18	51	1.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
671150--671202	24	2.2	24	83	6	63	47	0	1	50	1.12
671938--672041	45	2.3	44	85	9	131	32	19	17	30	1.95
672742--672810	34	2.1	34	86	5	97	34	15	26	23	1.95
673670--673717	19	2.5	20	82	3	62	52	6	12	29	1.63
684690--684717	10	2.8	10	100	0	56	71	17	10	0	1.14
688563--688655	34	3.0	28	68	26	71	45	6	5	43	1.52
689873--689920	23	2.1	23	88	0	69	37	8	18	35	1.81
690395--690467	23	3.2	23	90	0	110	38	21	4	35	1.73
690885--690957	23	3.2	23	92	0	119	38	21	5	34	1.77
691374--691446	23	3.2	23	92	0	119	38	21	5	34	1.77
689994--691632	490	3.4	488	96	1	2926	39	10	7	42	1.69
694335--694581	120	2.1	120	93	0	422	37	15	13	32	1.87
694170--694948	302	2.6	303	96	1	1420	34	16	14	34	1.90
694641--694883	120	2.0	120	93	0	414	37	16	13	32	1.88
696168--696221	3	18.0	3	92	0	90	29	33	1	35	1.69
697735--698698	200	4.8	200	96	0	1730	30	18	15	35	1.92
698920--698980	19	3.3	18	88	2	59	52	11	1	34	1.47
698932--698980	19	2.6	19	96	0	89	55	10	2	32	1.45
700767--700832	33	2.0	33	90	0	105	22	48	0	28	1.51
700866--700930	21	3.1	21	93	0	103	16	30	10	41	1.83
703134--703186	20	2.7	20	85	5	63	20	16	9	52	1.71
703312--703358	20	2.4	19	82	10	67	19	17	10	53	1.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
703098--703561	181	2.6	182	91	1	725	26	17	14	42	1.87
704456--704822	147	2.5	142	79	5	364	39	13	8	38	1.75
704709--704939	118	2.0	118	83	3	295	39	14	7	38	1.74
716038--716823	137	5.7	137	87	1	1031	33	25	16	24	1.96
717523--717569	20	2.3	20	85	0	58	36	10	29	23	1.89
723803--723908	45	2.4	45	85	1	142	32	25	8	33	1.86
724751--724820	36	1.9	36	97	0	131	18	31	10	40	1.84
726979--727037	3	20.3	3	75	13	52	67	1	3	27	1.16
726987--727048	29	2.2	28	81	16	76	62	3	4	29	1.31
728326--728382	3	19.0	3	89	7	89	63	0	0	36	0.95

Tables:   1   2   3   4   5   6   7   8   9